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Questions tagged [bioperl]

BioPerl is a package of Perl tools for computational molecular biology.

BioPerl is a toolkit of Perl modules useful in building bioinformatics solutions in Perl. Addition auxiliary modules for creating graphical interfaces (bioperl-gui), persistent storage in RDMBS (bioperl-db), running and parsing the results from hundreds of bioinformatics applications (Run package), software to automate bioinformatic analyses (bioperl-pipeline) are all available as Git modules in their repository.

References:

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How to compare and merge multiple files?

reference file chr1 288598 288656 chr1 779518 779576 chr2 2569592 2569660 chr3 5018399 5018464 chr4 5182842 5182882 file1 chr1 288598 288656 12 chr1 779518 779576 14 chr2 2569592 2569660 26 chr3 5018399 5018464…
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Printing sequences of a FASTA file using BioPerl

I have this code use warnings; use Getopt::Long; use Bio::SeqIO; GetOptions("in=s" => \$file) or die("Error in command line arguments\n"); open $new3, ">", "sequences_tmp.tab"; $seqin = Bio::SeqIO->new(-file => $file, -format => "Fasta"); $seqout =…
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