2012年10月9日星期二

nash-bioinformatics-codelets

http://code.google.com/p/nash-bioinformatics-codelets/downloads/list

 split_fasta.plwill split a multiple fasta file into several files, each containing one sequence, in fasta format.Feb 2012Feb 20125.0 KB60 
 subset_fasta.plTakes a multiple fasta file and removes a set of sequences to makes a second fasta file. Useful for pulling subsets of sequences from entire genomes.Feb 2012Feb 20125.5 KB29 
 restrict.pla really fast restriction mapperFeb 2012Feb 201228.4 KB25 
 search.plThis program searches nucleotide or protein sequences for a pattern or motif and tells you whether it is there or not. It can also provide the co-ordinates of each hit. It has a very powerful regular-expression based query capacity.Feb 2012Feb 201222.2 KB26 
 seqstats.plDisplays "Name", "number of nucleotides" and "%G+C content" for each entry in a multiple fasta fileFeb 2012Feb 20122.3 KB20 
 revcom.plReverse-complements DNA sequences in fasta format.Feb 2012Feb 20124.1 KB20 
 translate.plTranslates fasta files of nucleotide sequence to peptide sequences. The fasta file can be a multiple fasta file. The reading frame is specified on the command line. If the frame "-f" parameter is omitted, translate defaults to reading frame "+1".Feb 2012Feb 20128.0 KB29 
 cutseq_fasta.plTakes a large fasta file and cuts a subset of sequences to make a second fasta file.Feb 2012Feb 20129.4 KB42 
 search.phpa Web-interface for 'search'Nov 2011Nov 201110.8 KB24 
 Tk_search.plGUI-based sequence (protein or DNA) searcherNov 2011Nov 201146.6 KB16 
 yarp.plyarp.pl - a Web-based version of 'restrict' written in PerlNov 2011Nov 201133.1 KB28 
 restrict.phprestrict.php - a PHP wrapper for 'restrict' so that it can be served on the webNov 2011Nov 20119.8 KB9 
 pileup2fasta.plSamtools pileup to multiple fastaJun 2011Jun 20118.1 KB56 

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