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Google Keyword Rankings for : fasta lookup table
1
BLAST TOPICS - NCBI
https://www.ncbi.nlm.nih.gov/blast/fasta.shtml
BLAST searches consist of two phases, finding hits based upon a lookup table and then extending them. This option masks only for purposes of constructing ...
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https://www.ncbi.nlm.nih.gov/blast/fasta.shtml
BLAST searches consist of two phases, finding hits based upon a lookup table and then extending them. This option masks only for purposes of constructing ...
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2
FastA - Sequence Similarity Searching - EMBL-EBI
https://www.ebi.ac.uk/Tools/sss/fasta/
Protein Similarity Search. This tool provides sequence similarity searching against protein databases using the FASTA suite of programs.
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https://www.ebi.ac.uk/Tools/sss/fasta/
Protein Similarity Search. This tool provides sequence similarity searching against protein databases using the FASTA suite of programs.
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3
How to generate a lookup table (MapTable). - ResearchGate
https://www.researchgate.net/figure/How-to-generate-a-lookup-table-MapTable_fig2_8408482
In contrast to other methods such as FASTA and BLAST, this method is guaranteed to find all sequences whose scores against the query are higher than the ...
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https://www.researchgate.net/figure/How-to-generate-a-lookup-table-MapTable_fig2_8408482
In contrast to other methods such as FASTA and BLAST, this method is guaranteed to find all sequences whose scores against the query are higher than the ...
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4
fasta biostrings bioconductor
https://support.bioconductor.org/p/58590/
I am attempting to import a fasta file of sequences into R using ... key 112 (char 'p') not in lookup table > > My fasta file ("FileName.fa") is comprised ...
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https://support.bioconductor.org/p/58590/
I am attempting to import a fasta file of sequences into R using ... key 112 (char 'p') not in lookup table > > My fasta file ("FileName.fa") is comprised ...
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5
Table Browser - UCSC Genome Browser
https://genome.ucsc.edu/cgi-bin/hgTables
or keywords from the GenBank description of an mRNA, type the string into the position box, then click the Lookup button. The data in non-positional tables ...
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https://genome.ucsc.edu/cgi-bin/hgTables
or keywords from the GenBank description of an mRNA, type the string into the position box, then click the Lookup button. The data in non-positional tables ...
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6
FASTA
http://www.cs.tau.ac.il/~rshamir/algmb/98/scribe/html/lec03/node2.html
The FASTA algorithm is a heuristic method for string comparison. ... This stage can be done efficiently by using a lookup table or a hash to store all the ...
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http://www.cs.tau.ac.il/~rshamir/algmb/98/scribe/html/lec03/node2.html
The FASTA algorithm is a heuristic method for string comparison. ... This stage can be done efficiently by using a lookup table or a hash to store all the ...
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7
Bioinformatics 1: lecture 6
https://www.cs.purdue.edu/homes/ayg/TALKS/BLORE10/lecture6.pdf
Database searching using FASTA ... FASTA is a Heuristic alignment method, not Optimal. ... First make a set of lookup tables for all 3-letter (protein).
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https://www.cs.purdue.edu/homes/ayg/TALKS/BLORE10/lecture6.pdf
Database searching using FASTA ... FASTA is a Heuristic alignment method, not Optimal. ... First make a set of lookup tables for all 3-letter (protein).
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8
The FASTA program package Introduction
https://fasta.bioch.virginia.edu/wrpearson/fasta/fasta_guide.pdf
– All of the programs with fast in their name use a computer science method called a lookup table to speed the search. For proteins with ktup=2, ...
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https://fasta.bioch.virginia.edu/wrpearson/fasta/fasta_guide.pdf
– All of the programs with fast in their name use a computer science method called a lookup table to speed the search. For proteins with ktup=2, ...
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9
ViroBLAST Search main parameters - Dubcovsky Lab
https://dubcovskylab.ucdavis.edu/blast/docs/parameters.html
Here is a session using FastA to identify sequences in the PIR protein sequence ... USA 80; 726-730 (1983)) and may be referred to as a hash-table look-up ...
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https://dubcovskylab.ucdavis.edu/blast/docs/parameters.html
Here is a session using FastA to identify sequences in the PIR protein sequence ... USA 80; 726-730 (1983)) and may be referred to as a hash-table look-up ...
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10
Lookup Table error in Sequence Alignment with R - Biostars
https://www.biostars.org/p/300197/
Hi, I ran your code using your example .txt file, it worked fine, no errors. The error message you presented here indicated your sequence has extra space ...
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https://www.biostars.org/p/300197/
Hi, I ran your code using your example .txt file, it worked fine, no errors. The error message you presented here indicated your sequence has extra space ...
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11
parse_fasta: Parses FASTA for accession lookups in qzhang503 ...
https://rdrr.io/github/qzhang503/proteoQ/man/parse_fasta.html
Logical; if TRUE, show warning message(s). Value. A lookup table, acc_lookup . See Also. read_fasta for the definition of fasta_name( ...
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https://rdrr.io/github/qzhang503/proteoQ/man/parse_fasta.html
Logical; if TRUE, show warning message(s). Value. A lookup table, acc_lookup . See Also. read_fasta for the definition of fasta_name( ...
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12
Quick one-liner commands that are useful for genomics · GitHub
https://gist.github.com/darencard/e1933e544c9c96234e86d8cbccc709e0
make association table of old and renamed scaffold names after above renaming command ... rename FASTA headers using a 2-column lookup table output format: ...
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https://gist.github.com/darencard/e1933e544c9c96234e86d8cbccc709e0
make association table of old and renamed scaffold names after above renaming command ... rename FASTA headers using a 2-column lookup table output format: ...
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13
ViroBlast Home Page - Bioinformatics
https://www.bioinformatics.nl/wintermoth/viroblast/viroblast.php
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
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https://www.bioinformatics.nl/wintermoth/viroblast/viroblast.php
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
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14
BLAST and FASTA Algorithms Flashcards | Chegg.com
https://www.chegg.com/flashcards/blast-and-fasta-algorithms-dcf948b9-eb96-41ef-83ce-ec28afc5d171/deck
Step 1 of FASTA algorithm? Create a lookup table/word list of short nucleotide or peptide sequences from the database. Word length = k-tuple.
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https://www.chegg.com/flashcards/blast-and-fasta-algorithms-dcf948b9-eb96-41ef-83ce-ec28afc5d171/deck
Step 1 of FASTA algorithm? Create a lookup table/word list of short nucleotide or peptide sequences from the database. Word length = k-tuple.
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15
An Alternative Strategy For Sequence Alignment - UConn Health
https://health.uconn.edu/bioinformatics/wp-content/uploads/sites/162/2017/11/FastA_2016.pdf
FastA. • Faster than quadratic time. • Alignment isn't always optimal. • Hybrid of dot plot, ... The use of the table lookup in FastA reduces the.
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https://health.uconn.edu/bioinformatics/wp-content/uploads/sites/162/2017/11/FastA_2016.pdf
FastA. • Faster than quadratic time. • Alignment isn't always optimal. • Hybrid of dot plot, ... The use of the table lookup in FastA reduces the.
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16
Write to file using FASTA format - MATLAB fastawrite
https://www.mathworks.com/help/bioinfo/ref/fastawrite.html
For a list of valid characters, see Amino Acid Lookup or Nucleotide Lookup. Description. fastawrite( File , Data ) writes the contents of Data ...
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https://www.mathworks.com/help/bioinfo/ref/fastawrite.html
For a list of valid characters, see Amino Acid Lookup or Nucleotide Lookup. Description. fastawrite( File , Data ) writes the contents of Data ...
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17
BLAST Search - List of BLAST programs
http://blast.toulouse.inra.fr/blast.html
Enter sequence below in FASTA format. Or load it from disk. Set subsequence: From ... Low complexity. Mask for lookup table only.
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http://blast.toulouse.inra.fr/blast.html
Enter sequence below in FASTA format. Or load it from disk. Set subsequence: From ... Low complexity. Mask for lookup table only.
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18
Download Data - SoyBase
https://www.soybase.org/dlpages/
FASTA files of genomic, gene model and protein sequences from Glycine ... A table containing the chromosome and the beginning and end positions (in bp on ...
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https://www.soybase.org/dlpages/
FASTA files of genomic, gene model and protein sequences from Glycine ... A table containing the chromosome and the beginning and end positions (in bp on ...
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19
BLAST Search
http://bioinfo.mpipz.mpg.de/blast/cgi-bin/public_psiblast_cs.cgi
Or load it from disk. Please read about FASTA format description. Filter Low complexity. Mask for lookup table only. Composition-based statistics
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http://bioinfo.mpipz.mpg.de/blast/cgi-bin/public_psiblast_cs.cgi
Or load it from disk. Please read about FASTA format description. Filter Low complexity. Mask for lookup table only. Composition-based statistics
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20
[S] Rapid and Sensitive Sequence Comparison with FASTP ...
https://computingbiology.github.io/docs/pearson1990.pdf
the FASTA package (Table I) includes programs for comparing a protein ... s A lookup table is a rapid method for finding the position of a residue in a ...
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https://computingbiology.github.io/docs/pearson1990.pdf
the FASTA package (Table I) includes programs for comparing a protein ... s A lookup table is a rapid method for finding the position of a residue in a ...
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21
ORFanFinder
https://bcb.unl.edu/orfanfinder/manual.php
If you do not know the taxonomy ID of your genome, you can do a lookup here. ... Clicking on the bar will take you the table, filtering by that ORFan ...
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https://bcb.unl.edu/orfanfinder/manual.php
If you do not know the taxonomy ID of your genome, you can do a lookup here. ... Clicking on the bar will take you the table, filtering by that ORFan ...
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22
ttuner - interpretation of DNA Sanger sequencing data
https://manpages.ubuntu.com/manpages/jammy/man1/ttuner.1.html
... FASTA file which contains the consensus sequence -edited_bases Start base recalling from the ABI's edited bases -t <table> Use specified lookup table.
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https://manpages.ubuntu.com/manpages/jammy/man1/ttuner.1.html
... FASTA file which contains the consensus sequence -edited_bases Start base recalling from the ABI's edited bases -t <table> Use specified lookup table.
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23
Rhometa: Population recombination rate estimation ... - bioRxiv
https://www.biorxiv.org/content/10.1101/2022.08.04.502887v1.full
Lookup tables for population mutation rate 0.01 and population ... one of the bacterial sequences which represents the reference FASTA file, ...
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https://www.biorxiv.org/content/10.1101/2022.08.04.502887v1.full
Lookup tables for population mutation rate 0.01 and population ... one of the bacterial sequences which represents the reference FASTA file, ...
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24
Laboratory 9: BLAST and e-PCR
https://www.nybg.org/files/scientists/dlittle/phytoinformatics2022-lab09.pdf
(e) Confirm that 'sequence.fasta' has 369 sequences using grep. ... (b) Download the taxonomy name lookup table from NCBI by typing wget ftp://ftp.ncbi.
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https://www.nybg.org/files/scientists/dlittle/phytoinformatics2022-lab09.pdf
(e) Confirm that 'sequence.fasta' has 369 sequences using grep. ... (b) Download the taxonomy name lookup table from NCBI by typing wget ftp://ftp.ncbi.
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25
NCBI nr in Mascot Server 2.8.1 - Matrix Science
https://www.matrixscience.com/blog/ncbi-nr-tips-2.html
The FASTA file version and sequence count is saved in the header of ... The prot.av2taxid table must be available for random access lookup, ...
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https://www.matrixscience.com/blog/ncbi-nr-tips-2.html
The FASTA file version and sequence count is saved in the header of ... The prot.av2taxid table must be available for random access lookup, ...
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26
[BioC] fasta biostrings bioconductor
https://stat.ethz.ch/pipermail/bioconductor/2014-March/058600.html
Call2("new_XString_from_CHARACTER", classname, x, start(solved_SEW), : key 112 (char 'p') not in lookup table My fasta file ("FileName.fa") is comprised of ...
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https://stat.ethz.ch/pipermail/bioconductor/2014-March/058600.html
Call2("new_XString_from_CHARACTER", classname, x, start(solved_SEW), : key 112 (char 'p') not in lookup table My fasta file ("FileName.fa") is comprised of ...
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27
gene extraction from a fasta file according to sequence with ...
https://stackoverflow.com/questions/46175212/gene-extraction-from-a-fasta-file-according-to-sequence-with-biopython
Comment: I have never heard of hash so I didn't know what it does or doesn't. Reference: Built-in Functions hash(object) Return the hash ...
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https://stackoverflow.com/questions/46175212/gene-extraction-from-a-fasta-file-according-to-sequence-with-biopython
Comment: I have never heard of hash so I didn't know what it does or doesn't. Reference: Built-in Functions hash(object) Return the hash ...
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28
Biopython Tutorial and Cookbook
http://biopython.org/DIST/docs/tutorial/Tutorial.html
Fasta module in Biopython 1.51 (August 2009) and removed it in Biopython 1.55 ... Internally these use codon table objects derived from the NCBI ...
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http://biopython.org/DIST/docs/tutorial/Tutorial.html
Fasta module in Biopython 1.51 (August 2009) and removed it in Biopython 1.55 ... Internally these use codon table objects derived from the NCBI ...
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29
MMseqs2 User Guide
https://mmseqs.com/latest/userguide.pdf
queryDB.index, queryDB_h.index and queryDB.lookup from the FASTA QUERY.fasta input ... module using the canonical translation table (--translation-table 1).
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https://mmseqs.com/latest/userguide.pdf
queryDB.index, queryDB_h.index and queryDB.lookup from the FASTA QUERY.fasta input ... module using the canonical translation table (--translation-table 1).
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30
ViroBLAST Home Page - Mullins Lab
https://indra.mullins.microbiol.washington.edu/viroblast/viroblast.php
Mask for lookup table only. Mask for lower case letters ... Blast multiple query sequences at a time via copy-paste sequences or upload sequence fasta file.
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https://indra.mullins.microbiol.washington.edu/viroblast/viroblast.php
Mask for lookup table only. Mask for lower case letters ... Blast multiple query sequences at a time via copy-paste sequences or upload sequence fasta file.
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31
Proteogenomics 2: Database Search - Galaxy Training!
https://training.galaxyproject.org/archive/2019-02-07/topics/proteomics/tutorials/proteogenomics-dbsearch/tutorial.html
FASTA”. The second workflow focuses on performing database search of the ... “Tabular Dataset for Table”: Uniprot; “Use first line as column names” : No ...
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https://training.galaxyproject.org/archive/2019-02-07/topics/proteomics/tutorials/proteogenomics-dbsearch/tutorial.html
FASTA”. The second workflow focuses on performing database search of the ... “Tabular Dataset for Table”: Uniprot; “Use first line as column names” : No ...
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32
blast - The Comprehensive Antibiotic Resistance Database
https://card.mcmaster.ca/analyze/blast
Upload FASTA Query Sequence: Upload or paste a plain text file containing DNA or protein sequence(s) in FASTA format (5000 nucleotide or amino acid limit) ...
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https://card.mcmaster.ca/analyze/blast
Upload FASTA Query Sequence: Upload or paste a plain text file containing DNA or protein sequence(s) in FASTA format (5000 nucleotide or amino acid limit) ...
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33
PLNT4610/PLNT7690 Bioinformatics - Lecture 5, part 3 of 3
https://home.cc.umanitoba.ca/~frist/PLNT7690/lec05/lec05.3.html
The two most common database search packages, FASTA and BLAST, both use lookup tables of k-tuple words to make searches quick. Additionally, sites such as ...
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https://home.cc.umanitoba.ca/~frist/PLNT7690/lec05/lec05.3.html
The two most common database search packages, FASTA and BLAST, both use lookup tables of k-tuple words to make searches quick. Additionally, sites such as ...
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34
shootout/fasta.c - exp - Git at Google
https://go.googlesource.com/exp/+/master/shootout/fasta.c
Lookup table contains mapping from real values to cumulative. * probabilities. Careful selection of table size allows lookup. * virtually in constant time.
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https://go.googlesource.com/exp/+/master/shootout/fasta.c
Lookup table contains mapping from real values to cumulative. * probabilities. Careful selection of table size allows lookup. * virtually in constant time.
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35
Database Similarity Searching- BLAST & FASTA - YouTube
https://www.youtube.com/watch?v=jL_dbaGytNE
Aug 25, 2020
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https://www.youtube.com/watch?v=jL_dbaGytNE
Aug 25, 2020
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36
Welcome To RNAlien!
http://nibiru.tbi.univie.ac.at/rnalien/help
RNAlien Webservice accepts a fasta file with a single sequence as obligatory ... meaning exclusion of low complexity (repetative) regions in lookup table.
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http://nibiru.tbi.univie.ac.at/rnalien/help
RNAlien Webservice accepts a fasta file with a single sequence as obligatory ... meaning exclusion of low complexity (repetative) regions in lookup table.
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37
Ryan Lab - BLAST (Moroz data)
http://ryanlab.whitney.ufl.edu/genomes/Holothuria_glaberrima/blast.viro/
... using default BLAST parameter settings. Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only
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http://ryanlab.whitney.ufl.edu/genomes/Holothuria_glaberrima/blast.viro/
... using default BLAST parameter settings. Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only
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38
Pairwise alignment error message - RStudio Community
https://community.rstudio.com/t/pairwise-alignment-error-message/17902
key 0 not in lookup table ... #Read prok.fasta into a new variable prokaryotes <- read.fasta(file = "prok.fasta", seqtype = "DNA") #Read first sequence Seq1 ...
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https://community.rstudio.com/t/pairwise-alignment-error-message/17902
key 0 not in lookup table ... #Read prok.fasta into a new variable prokaryotes <- read.fasta(file = "prok.fasta", seqtype = "DNA") #Read first sequence Seq1 ...
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39
BLAST Search - MGH-PGA
http://pga2.mgh.harvard.edu:8080/rtpcr/blast/psiblast_cs.html
Or load it from disk. Please read about FASTA format description. Filter Low complexity. Mask for lookup table only. Composition-based statistics
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http://pga2.mgh.harvard.edu:8080/rtpcr/blast/psiblast_cs.html
Or load it from disk. Please read about FASTA format description. Filter Low complexity. Mask for lookup table only. Composition-based statistics
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40
BLAST Search
http://oikoarrays.biology.uiowa.edu/blast/blastx.html
Enter sequence below in FASTA format. Or load it from disk. Set subsequence: From ... Low complexity. Mask for lookup table only.
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http://oikoarrays.biology.uiowa.edu/blast/blastx.html
Enter sequence below in FASTA format. Or load it from disk. Set subsequence: From ... Low complexity. Mask for lookup table only.
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41
MBV3070 ukeoppgave 4 - UiO
https://www.uio.no/studier/emner/matnat/ibv/MBV3070/v04/undervisningsmateriale/MBV3070ukeoppgave4.doc
FASTA uses a lookup table as a rapid way to find common letters and words in the same order and of approximately the same separation in two sequences.
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https://www.uio.no/studier/emner/matnat/ibv/MBV3070/v04/undervisningsmateriale/MBV3070ukeoppgave4.doc
FASTA uses a lookup table as a rapid way to find common letters and words in the same order and of approximately the same separation in two sequences.
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42
WaspBase - InsectBase
http://www.insect-genome.com/waspbase/blast/blast.php
... using default BLAST parameter settings. Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only
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http://www.insect-genome.com/waspbase/blast/blast.php
... using default BLAST parameter settings. Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only
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43
SeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File ...
https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0163962
FASTA and FASTQ are basic and ubiquitous formats for storing ... sequence utilizes map in Go (also called hash table or dictionary in some ...
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https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0163962
FASTA and FASTQ are basic and ubiquitous formats for storing ... sequence utilizes map in Go (also called hash table or dictionary in some ...
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44
Fast Searching of Large Sequence Databases - UCSF RBVI
https://www.rbvi.ucsf.edu/chimerax/data/kmer-aug2022/kmer_search.html
... that have many 5-mer subsequences in common using a lookup table. ... The index file is 250 Gbytes in size, while the database fasta ...
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https://www.rbvi.ucsf.edu/chimerax/data/kmer-aug2022/kmer_search.html
... that have many 5-mer subsequences in common using a lookup table. ... The index file is 250 Gbytes in size, while the database fasta ...
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45
Data & Code - Matz Lab
https://matzlab.weebly.com/data--code.html
Each transcriptome includes a fasta file of contig/isotig sequences plus separate lookup tables for correspondences between contigs and isogroups (i.e., ...
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https://matzlab.weebly.com/data--code.html
Each transcriptome includes a fasta file of contig/isotig sequences plus separate lookup tables for correspondences between contigs and isogroups (i.e., ...
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46
BLAST Search
http://www.cbi.cnptia.embrapa.br/blast/blast.html
Enter sequence below in FASTA format. Or load it from disk. The query sequence is filtered for low complexity ... Low complexity. Mask for lookup table only.
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http://www.cbi.cnptia.embrapa.br/blast/blast.html
Enter sequence below in FASTA format. Or load it from disk. The query sequence is filtered for low complexity ... Low complexity. Mask for lookup table only.
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47
Sequence Alignment
https://www.eecis.udel.edu/~decker/courses/889d-bio/bio-xinyu-dbs.ppt
FASTA sequence database similarity search. 2. Basic local alignment search ... Fast methods: FASTA, BLAST. Dot Matrix ... FASTA Alignment - lookup table.
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https://www.eecis.udel.edu/~decker/courses/889d-bio/bio-xinyu-dbs.ppt
FASTA sequence database similarity search. 2. Basic local alignment search ... Fast methods: FASTA, BLAST. Dot Matrix ... FASTA Alignment - lookup table.
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48
Phytomine Cookbook - How to do common operations
https://phytozome-next.jgi.doe.gov/phytomine/html/start.html
... an organism and can be used to generate large tables of data for downloading. ... GFF3 or UCSC-BED for use with genome browsers, or raw FASTA sequence.
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https://phytozome-next.jgi.doe.gov/phytomine/html/start.html
... an organism and can be used to generate large tables of data for downloading. ... GFF3 or UCSC-BED for use with genome browsers, or raw FASTA sequence.
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49
Anyone want to take a crack at making the fasta shootout program ...
https://groups.google.com/d/topic/clojure/0nYwwPsh3CA
The Clojure program for the "fasta" problem, with source code, AOT ... lookup-table (ints (make-lookup-table (make-cumulative probs))) width (int *width*)
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https://groups.google.com/d/topic/clojure/0nYwwPsh3CA
The Clojure program for the "fasta" problem, with source code, AOT ... lookup-table (ints (make-lookup-table (make-cumulative probs))) width (int *width*)
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50
ViroBlast Home Page
http://bioinfo.icgeb.res.in/protvirdb/blast/viroblast.php
About ViroBLAST Help. Enter query sequences here in Fasta format. Or Upload sequence file in fasta format ( upto 4.5 M)* : ... Mask for lookup table only.
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http://bioinfo.icgeb.res.in/protvirdb/blast/viroblast.php
About ViroBLAST Help. Enter query sequences here in Fasta format. Or Upload sequence file in fasta format ( upto 4.5 M)* : ... Mask for lookup table only.
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51
SWAP454 Help | Broad Institute
https://www.broadinstitute.org/computational-rd/swap454-help
your_reference_file.fasta.lookuptable.fastamb= your_reference_file.fasta.lookuptable.lookup= Lookup table for your reference fasta. Create Coverage Map.
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https://www.broadinstitute.org/computational-rd/swap454-help
your_reference_file.fasta.lookuptable.fastamb= your_reference_file.fasta.lookuptable.lookup= Lookup table for your reference fasta. Create Coverage Map.
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52
Step 06 - Calculating Secondary Structure - AWS
http://rstudio-pubs-static.s3.amazonaws.com/2263_3907c514ab9c421da34f8b03edc4f845.html
I saved the sequences to data/transcripts.cds30.fasta . ... To save on computation time, I will create a lookup table to avoid calculating energies for ...
→ Check Latest Keyword Rankings ←
http://rstudio-pubs-static.s3.amazonaws.com/2263_3907c514ab9c421da34f8b03edc4f845.html
I saved the sequences to data/transcripts.cds30.fasta . ... To save on computation time, I will create a lookup table to avoid calculating energies for ...
→ Check Latest Keyword Rankings ←
53
ViroBlast Home Page
http://marineseq.imr.no/salmon2014/viroblast/viroblast.php
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
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http://marineseq.imr.no/salmon2014/viroblast/viroblast.php
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
→ Check Latest Keyword Rankings ←
54
EFI - Taxonomy Tool - Enzyme Function Initiative
https://efi.igb.illinois.edu/taxonomy/
These are analogous to the Families option (Option B), FASTA option (Option C) ... andUniRef50 databases using the lookup table provided by UniProt/UniRef.
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https://efi.igb.illinois.edu/taxonomy/
These are analogous to the Families option (Option B), FASTA option (Option C) ... andUniRef50 databases using the lookup table provided by UniProt/UniRef.
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55
ViroBLAST Search main parameters
http://cyanophora.rutgers.edu/porphyridium/docs/parameters.html
Sequence Format: Fasta: A common sequence format offered by most sequence ... Filter (Mask for lookup table only): This option masks only for purposes of ...
→ Check Latest Keyword Rankings ←
http://cyanophora.rutgers.edu/porphyridium/docs/parameters.html
Sequence Format: Fasta: A common sequence format offered by most sequence ... Filter (Mask for lookup table only): This option masks only for purposes of ...
→ Check Latest Keyword Rankings ←
56
FASTA (EBI) - bio.tools
https://bio.tools/FASTA_EBI
› FASTA_EBI
→ Check Latest Keyword Rankings ←
https://bio.tools/FASTA_EBI
› FASTA_EBI
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57
SequenceServer: Custom BLAST Server
https://blast.ni.gsu.edu/
C2.swim.fasta; PleuT.TSA.FLT.fasta; Trit.C2.combined.fasta; TritT.TSA.FLT.fasta. Advanced parameters: Open results in new tab.
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https://blast.ni.gsu.edu/
C2.swim.fasta; PleuT.TSA.FLT.fasta; Trit.C2.combined.fasta; TritT.TSA.FLT.fasta. Advanced parameters: Open results in new tab.
→ Check Latest Keyword Rankings ←
58
Proteome Discoverer 2.2 User Guide - Thermo Fisher
https://assets.thermofisher.com/TFS-Assets/CMD/manuals/Man-XCALI-97808-Proteome-Discoverer-User-ManXCALI97808-EN.pdf
A FASTA index is a type of lookup table containing masses, theoretical peptide sequences, and associated proteins, which minimizes search time.
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https://assets.thermofisher.com/TFS-Assets/CMD/manuals/Man-XCALI-97808-Proteome-Discoverer-User-ManXCALI97808-EN.pdf
A FASTA index is a type of lookup table containing masses, theoretical peptide sequences, and associated proteins, which minimizes search time.
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59
OPENSEQ.org - GREMLIN FAQ
http://gremlin.bakerlab.org/cplx_faq.php
Δgene · Uniprot sequence database, filtered to remove singletons (contigs with only a single gene). · The fasta headers: >B3MJ72_07aQ_00I9_F >B3MJ72_07aQ_00I9_F ...
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http://gremlin.bakerlab.org/cplx_faq.php
Δgene · Uniprot sequence database, filtered to remove singletons (contigs with only a single gene). · The fasta headers: >B3MJ72_07aQ_00I9_F >B3MJ72_07aQ_00I9_F ...
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60
HELP [PIR - Protein Information Resource]
https://proteininformationresource.org/pirwww/help.shtml
UniProtKB Identifiers for BLAST/FASTA Search and Analysis Tools Tools ... This option masks only for purposes of constructing the lookup table used by BLAST ...
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https://proteininformationresource.org/pirwww/help.shtml
UniProtKB Identifiers for BLAST/FASTA Search and Analysis Tools Tools ... This option masks only for purposes of constructing the lookup table used by BLAST ...
→ Check Latest Keyword Rankings ←
61
SequenceServer: Custom BLAST Server
https://evocellbio.com/SAGdb/wideman_et_al/
Nucleotide databases · Sample_10B_34A.fasta · Sample_10B_34B.fasta · Sample_10B_35B.fasta · Sample_10B_35C.fasta · Sample_10C_34A.fasta · Sample_10D_34B.fasta
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https://evocellbio.com/SAGdb/wideman_et_al/
Nucleotide databases · Sample_10B_34A.fasta · Sample_10B_34B.fasta · Sample_10B_35B.fasta · Sample_10B_35C.fasta · Sample_10C_34A.fasta · Sample_10D_34B.fasta
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62
Blast - Lettuce Genome Database
https://lettucegdb.com/toolblast
... AA sequences for blastp and blastx. Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
→ Check Latest Keyword Rankings ←
https://lettucegdb.com/toolblast
... AA sequences for blastp and blastx. Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
→ Check Latest Keyword Rankings ←
63
Improved tools for biological sequence comparison. - PNAS
https://www.pnas.org/doi/pdf/10.1073/pnas.85.8.2444
FASTP and FASTA achieve much of their speed and selec- tivity in the first step, by using a lookup table to locate all identities or groups of identities ...
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https://www.pnas.org/doi/pdf/10.1073/pnas.85.8.2444
FASTP and FASTA achieve much of their speed and selec- tivity in the first step, by using a lookup table to locate all identities or groups of identities ...
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64
FastA - Sequence Analysis
https://bip.weizmann.ac.il/education/materials/gcg/fasta.html
FASTA. [ Program Manual | User's Guide | Data Files | Databases ]. Table of Contents. FUNCTION: DESCRIPTION: EXAMPLE: OUTPUT: INPUT FILES: RELATED PROGRAMS ...
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https://bip.weizmann.ac.il/education/materials/gcg/fasta.html
FASTA. [ Program Manual | User's Guide | Data Files | Databases ]. Table of Contents. FUNCTION: DESCRIPTION: EXAMPLE: OUTPUT: INPUT FILES: RELATED PROGRAMS ...
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65
Lecture 9 Database Searching Database Searching for ...
http://www.binf.gmu.edu/jafri/binf630/Lecture6.pdf
FASTA. • Fast alignment of pairs of protein or DNA sequences. • Searches for matching sequence ... In hashing, a lookup table showing the positions of.
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http://www.binf.gmu.edu/jafri/binf630/Lecture6.pdf
FASTA. • Fast alignment of pairs of protein or DNA sequences. • Searches for matching sequence ... In hashing, a lookup table showing the positions of.
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66
FastA - : : DBBM : :
http://www.dbbm.fiocruz.br/cgc/fasta.html
FastA does a Pearson and Lipman search for similarity between a query sequence ... USA 80; 726-730 (1983)) and may be referred to as a hash-table look-up ...
→ Check Latest Keyword Rankings ←
http://www.dbbm.fiocruz.br/cgc/fasta.html
FastA does a Pearson and Lipman search for similarity between a query sequence ... USA 80; 726-730 (1983)) and may be referred to as a hash-table look-up ...
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67
3 FastA and the chaining problem 3.1 Sources for this lecture ...
http://www.mi.fu-berlin.de/wiki/pub/ABI/AlignmentHeuristicsWS13/fasta.pdf
FastA does not create a dot plot! Since ktup is small, we can hash all positions i of x into the bins of a lookup-table, using the substring.
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http://www.mi.fu-berlin.de/wiki/pub/ABI/AlignmentHeuristicsWS13/fasta.pdf
FastA does not create a dot plot! Since ktup is small, we can hash all positions i of x into the bins of a lookup-table, using the substring.
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68
JCDB: Jatropha curcas Database
http://jcdb.liu-lab.com/index.php?m=Blast&a=blast
Enter query sequences here in Fasta format help | use test fasta sequence. Or upload sequence fasta file: ... Mask for lookup table only
→ Check Latest Keyword Rankings ←
http://jcdb.liu-lab.com/index.php?m=Blast&a=blast
Enter query sequences here in Fasta format help | use test fasta sequence. Or upload sequence fasta file: ... Mask for lookup table only
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69
CHOblast Search Parameters - CHOgenome.org
https://blast.chogenome.org/parameters.php
Fasta: A common sequence format offered by most sequence and alignment editors. ... Mask for lookup table only: This option masks only for purposes of ...
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https://blast.chogenome.org/parameters.php
Fasta: A common sequence format offered by most sequence and alignment editors. ... Mask for lookup table only: This option masks only for purposes of ...
→ Check Latest Keyword Rankings ←
70
Curator's guide — BIGSdb 1.11.0 documentation
https://bigsdb.readthedocs.io/en/v1.11.0/curator_guide.html
Click 'FASTA' upload on the curator's contents page. _images/add_alleles8.png ... Following a query, a results table of isolates will be displayed.
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https://bigsdb.readthedocs.io/en/v1.11.0/curator_guide.html
Click 'FASTA' upload on the curator's contents page. _images/add_alleles8.png ... Following a query, a results table of isolates will be displayed.
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71
Homology Search - ONLINE ANALYSIS TOOLS
https://molbiol-tools.ca/Homology.htm
A graphical display of search results and a summary table display of search results. ... while the hit sequences can be exported in FASTA format.
→ Check Latest Keyword Rankings ←
https://molbiol-tools.ca/Homology.htm
A graphical display of search results and a summary table display of search results. ... while the hit sequences can be exported in FASTA format.
→ Check Latest Keyword Rankings ←
72
Human (Homo sapiens) - Ensembl
https://www.ensembl.org/Homo_sapiens/Info/Index
Genome assembly: GRCh38.p13 (GCA_000001405.28). More information and statistics · Download DNA sequence (FASTA). Convert your data to GRCh38 coordinates.
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https://www.ensembl.org/Homo_sapiens/Info/Index
Genome assembly: GRCh38.p13 (GCA_000001405.28). More information and statistics · Download DNA sequence (FASTA). Convert your data to GRCh38 coordinates.
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73
H-BLAST: a fast protein sequence alignment toolkit on ...
https://academic.oup.com/bioinformatics/article/33/8/1130/2900493
... but also creates a lookup table indexing query sequences. ... Firstly, a sorted NCBI-BLAST format database is converted from a FASTA format database and ...
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https://academic.oup.com/bioinformatics/article/33/8/1130/2900493
... but also creates a lookup table indexing query sequences. ... Firstly, a sorted NCBI-BLAST format database is converted from a FASTA format database and ...
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74
BeetleBLAST - Bean Beetles
https://www.beanbeetle.org/bean-beetle-genome/blast/
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
→ Check Latest Keyword Rankings ←
https://www.beanbeetle.org/bean-beetle-genome/blast/
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
→ Check Latest Keyword Rankings ←
75
BLAST Transcript Databases
https://ambystoma.uky.edu/quick-links/blast
Please read about FASTA format description. Set subsequence - From: ... Low complexity. Mask for lookup table only.
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https://ambystoma.uky.edu/quick-links/blast
Please read about FASTA format description. Set subsequence - From: ... Low complexity. Mask for lookup table only.
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76
Getting More from Less - Molecular & Cellular Proteomics
https://www.mcponline.org/content/1/2/139.full.pdf
TABLE I. The FASTA, FASTS, and FASTF algorithms. FASTA. FASTS. FASTF. 1. Identify identical regions shared by query and library sequence with lookup table.
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https://www.mcponline.org/content/1/2/139.full.pdf
TABLE I. The FASTA, FASTS, and FASTF algorithms. FASTA. FASTS. FASTF. 1. Identify identical regions shared by query and library sequence with lookup table.
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77
Rentrez Tutorial
https://cran.r-project.org/web/packages/rentrez/vignettes/rentrez_tutorial.html
Fetch DNA sequences in fasta format; Fetch a parsed XML document ... list of formats available for each database is give in this table):.
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https://cran.r-project.org/web/packages/rentrez/vignettes/rentrez_tutorial.html
Fetch DNA sequences in fasta format; Fetch a parsed XML document ... list of formats available for each database is give in this table):.
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78
Rich Kliman's Cedar Crest College Home Page - Software
http://www2.cedarcrest.edu/academic/bio/rkliman/rmk_software.shtml
... Noor's perl program to search a Fasta library for microsatellites. ... In "check" mode, CODON10 examines the lookup table for problems ...
→ Check Latest Keyword Rankings ←
http://www2.cedarcrest.edu/academic/bio/rkliman/rmk_software.shtml
... Noor's perl program to search a Fasta library for microsatellites. ... In "check" mode, CODON10 examines the lookup table for problems ...
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79
Table Browser User's Guide
https://genomes.crick.ac.uk/goldenPath/help/hgTablesHelp.html
Displaying all fields in a table; Displaying selected fields from one or more tables; Displaying sequence (FASTA) data; Displaying CDS FASTA alignments ...
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https://genomes.crick.ac.uk/goldenPath/help/hgTablesHelp.html
Displaying all fields in a table; Displaying selected fields from one or more tables; Displaying sequence (FASTA) data; Displaying CDS FASTA alignments ...
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80
How to append numbers only on duplicates sequence names?
https://bioinformatics.stackexchange.com/questions/979/how-to-append-numbers-only-on-duplicates-sequence-names
records = set() This will create a lookup table of all IDs written; for record in SeqIO.parse("foo.fa", "fasta"): Open foo.fa as a fasta ...
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https://bioinformatics.stackexchange.com/questions/979/how-to-append-numbers-only-on-duplicates-sequence-names
records = set() This will create a lookup table of all IDs written; for record in SeqIO.parse("foo.fa", "fasta"): Open foo.fa as a fasta ...
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81
T3/Oat - The Triticeae Toolbox
https://triticeaetoolbox.org/oat/viroblast/
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... And/or upload sequence fasta file: ... Mask for lookup table only
→ Check Latest Keyword Rankings ←
https://triticeaetoolbox.org/oat/viroblast/
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... And/or upload sequence fasta file: ... Mask for lookup table only
→ Check Latest Keyword Rankings ←
82
Saccharomyces Genome Database | SGD
https://www.yeastgenome.org/
→ Check Latest Keyword Rankings ←
https://www.yeastgenome.org/
→ Check Latest Keyword Rankings ←
83
Centrifuge - CCB at JHU
https://ccb.jhu.edu/software/centrifuge/manual.shtml
Traditionally used with BLAST, a download of the FASTA is provided on the NCBI ... The ftab is the lookup table used to calculate an initial Burrows-Wheeler ...
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https://ccb.jhu.edu/software/centrifuge/manual.shtml
Traditionally used with BLAST, a download of the FASTA is provided on the NCBI ... The ftab is the lookup table used to calculate an initial Burrows-Wheeler ...
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84
Step 06 - Calculating Secondary Structure - RPubs
https://rpubs.com/dbg/2263
I saved the sequences to data/transcripts.cds30.fasta . ... To save on computation time, I will create a lookup table to avoid calculating energies for ...
→ Check Latest Keyword Rankings ←
https://rpubs.com/dbg/2263
I saved the sequences to data/transcripts.cds30.fasta . ... To save on computation time, I will create a lookup table to avoid calculating energies for ...
→ Check Latest Keyword Rankings ←
85
Accessing data - COG-UK Docs
https://docs.covid19.climb.ac.uk/accessing-data.html
Using CLIMB to access FASTA, BAM and metadata for samples that have ... via a the lookup table ( /cephfs/covid/artifacts/elan/latest/majora.pag_lookup.tsv ) ...
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https://docs.covid19.climb.ac.uk/accessing-data.html
Using CLIMB to access FASTA, BAM and metadata for samples that have ... via a the lookup table ( /cephfs/covid/artifacts/elan/latest/majora.pag_lookup.tsv ) ...
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86
manual
https://www.genome.jp/tools-bin/show_man?fasta
DESCRIPTION Release 3.6 of the FASTA package provides a modular set of sequence ... pseg database.fasta -z 1 -q > database.lc_seg -t # Translation table ...
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https://www.genome.jp/tools-bin/show_man?fasta
DESCRIPTION Release 3.6 of the FASTA package provides a modular set of sequence ... pseg database.fasta -z 1 -q > database.lc_seg -t # Translation table ...
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87
The Fasta and Blast programs Frédérique Galisson July 18 ...
https://courses.cs.duke.edu/spring21/compsci260/resources/AlignmentPapers/galisson.fasta.blast.pdf
The programs from the Blast and Fasta families are heuristics ... computational structure known as "lookup table" in order to store all the.
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https://courses.cs.duke.edu/spring21/compsci260/resources/AlignmentPapers/galisson.fasta.blast.pdf
The programs from the Blast and Fasta families are heuristics ... computational structure known as "lookup table" in order to store all the.
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88
phred.doc - CodonCode Corporation
https://www.codoncode.com/support/phred.doc.html
After calling bases, phred writes the sequences to files in either FASTA format, ... add LI-COR quality value lookup tables for chromatograms created by the ...
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https://www.codoncode.com/support/phred.doc.html
After calling bases, phred writes the sequences to files in either FASTA format, ... add LI-COR quality value lookup tables for chromatograms created by the ...
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89
BLAST+: architecture and applications - BMC Bioinformatics
https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-10-421
The lookup table contains only words from the query for ... locally search a set of queries against a set of FASTA subject sequences [17].
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https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-10-421
The lookup table contains only words from the query for ... locally search a set of queries against a set of FASTA subject sequences [17].
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90
Improved tools for biological sequence comparison
http://gi.cebitec.uni-bielefeld.de/_media/teaching/2010summer/529fasta.pdf
FASTA – Step 1. ○ Locate all identities or groups of identities between two sequences by using a lookup table. – The lookup table has to be pre-processed.
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http://gi.cebitec.uni-bielefeld.de/_media/teaching/2010summer/529fasta.pdf
FASTA – Step 1. ○ Locate all identities or groups of identities between two sequences by using a lookup table. – The lookup table has to be pre-processed.
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91
mtDNA Haplogroup Analysis
https://dna.jameslick.com/
Directions for FASTA format (FTDNA, GenBank, et al.) ... CRS Transition Transversion Lookup Table http://dnacousins.vizachero.com/.
→ Check Latest Keyword Rankings ←
https://dna.jameslick.com/
Directions for FASTA format (FTDNA, GenBank, et al.) ... CRS Transition Transversion Lookup Table http://dnacousins.vizachero.com/.
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92
BLAST - DEVNEURO LAB
https://blastkit.hpcf.upr.edu/hglaberrima-v1/blast.viro/
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
→ Check Latest Keyword Rankings ←
https://blastkit.hpcf.upr.edu/hglaberrima-v1/blast.viro/
Enter query sequences here in Fasta format. Or upload sequence fasta file: ... Mask for lookup table only. Mask for lower case letters.
→ Check Latest Keyword Rankings ←
93
Daphnia Genome BLAST - wFleaBase
http://wfleabase.org/release1/blast/
Enter sequence below in FASTA format. Or load it from disk. The query sequence is filtered for low complexity ... Low complexity. Mask for lookup table only.
→ Check Latest Keyword Rankings ←
http://wfleabase.org/release1/blast/
Enter sequence below in FASTA format. Or load it from disk. The query sequence is filtered for low complexity ... Low complexity. Mask for lookup table only.
→ Check Latest Keyword Rankings ←
94
MicrobesOnline BLAST Search
http://www.microbesonline.org/blast/blast_cs2.html
Enter here your input data in FASTA format: Or load it from disk (size limit approximately 1mb):. Set subsequence: From ... Mask for lookup table only.
→ Check Latest Keyword Rankings ←
http://www.microbesonline.org/blast/blast_cs2.html
Enter here your input data in FASTA format: Or load it from disk (size limit approximately 1mb):. Set subsequence: From ... Mask for lookup table only.
→ Check Latest Keyword Rankings ←
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