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Seqio freeware
 

Seqio

Added: June 10, 2010 | Visits: 891

Bio::SeqIO::fastq Bio::SeqIO::fastq is a fastq sequence input/output stream. SYNOPSIS Do not use this module directly. Use it via the Bio::SeqIO class. This object can transform Bio::Seq and Bio::Seq::SeqWithQuality objects to and from fastq flat file databases. Fastq is a file format used frequently at... Platforms: *nix

License: Freeware Size: 4.7 MB Download (88): Bio::SeqIO::fastq Download

Added: September 26, 2010 | Visits: 603

Bio::Seq Bio::Seq is a sequence object, with features. SYNOPSIS # This is the main sequence object in Bioperl # gets a sequence from a file $seqio = Bio::SeqIO->new( -format => embl , -file => myfile.dat); $seqobj = $seqio->next_seq(); # SeqIO can both read and write sequences; see Bio::SeqIO #... Platforms: *nix

License: Freeware Size: 4.7 MB Download (77): Bio::Seq Download

Added: November 14, 2010 | Visits: 680

Bio::Factory::SequenceFactoryI Bio::Factory::SequenceFactoryI is a Perl interface that allows for generic building of sequences in factories which create sequences (like SeqIO). SYNOPSIS # do not use this object directly it is an interface # get a Bio::Factory::SequenceFactoryI object like use Bio::Seq::SeqFactory; my... Platforms: *nix

License: Freeware Size: 4.7 MB Download (72): Bio::Factory::SequenceFactoryI Download

Added: April 10, 2010 | Visits: 579

Bio::AnnotationCollectionI Bio::AnnotationCollectionI is a Perl interface for annotation collections. SYNOPSIS # get an AnnotationCollectionI somehow, eg $ac = $seq->annotation(); foreach $key ( $ac->get_all_annotation_keys() ) { @values = $ac->get_Annotations($key); foreach $value ( @values ) { # value is an... Platforms: *nix

License: Freeware Size: 4.7 MB Download (72): Bio::AnnotationCollectionI Download

Added: September 18, 2010 | Visits: 986

Bio::Index::Swissprot Bio::Index::Swissprot is a Perl Interface for indexing (multiple) Swissprot .dat files (ie flat file swissprot format). SYNOPSIS # Complete code for making an index for several # Swissprot files use Bio::Index::Swissprot; use strict; my $Index_File_Name = shift; my $inx =... Platforms: *nix

License: Freeware Size: 4.7 MB Download (79): Bio::Index::Swissprot Download

Added: January 06, 2010 | Visits: 799

Bio::Graphics::Panel 1.5.2_005 Bio::Graphics::Panel is a Perl module to generate GD images of Bio::Seq objects. SYNOPSIS # This script parses a GenBank or EMBL file named on the command # line and produces a PNG rendering of it. Call it like this: # render.pl my_file.embl | display - use strict; use Bio::Graphics;... Platforms: *nix

License: Freeware Size: 5.7 MB Download (75): Bio::Graphics::Panel 1.5.2_005 Download

Added: March 08, 2010 | Visits: 644

Bio::AlignIO::bl2seq Bio::AlignIO::bl2seq is a bl2seq sequence input/output stream. SYNOPSIS Do not use this module directly. Use it via the Bio::AlignIO class, as in: use Bio::AlignIO; $in = Bio::AlignIO->new(-file => "inputfilename" , -format => bl2seq); $aln = $in->next_aln(); This object can create... Platforms: *nix

License: Freeware Size: 4.7 MB Download (96): Bio::AlignIO::bl2seq Download