Bio::Tools::Run::Samtools - a run wrapper for the samtools suite *BETA*

This is a wrapper for running samtools, a suite of large-alignment reading and manipulation programs available at <http://samtools.sourceforge.net/>....

CJFIELDS/BioPerl-Run-1.007001 - 19 Dec 2016 04:28:18 GMT - Search in distribution

Bio::Tradis::Samtools - Change samtools syntax depending on version found

AJPAGE/Bio-Tradis-1.3.3 - 08 May 2017 14:41:56 GMT - Search in distribution

Bio::DB::Sam - Read SAM/BAM database files

This module provides a Perl interface to the libbam library for indexed and unindexed SAM/BAM sequence alignment databases. It provides support for retrieving information on individual alignments, read pairs, and alignment coverage information across...

LDS/Bio-SamTools-1.43 - 12 Feb 2016 19:33:32 GMT - Search in distribution

fromsam

TSIBLEY/App-RecordStream-Bio-0.18 - 06 Jul 2016 19:17:25 GMT - Search in distribution

Bio::HTS - XS module providing an interface to htslib

The beginnings of an XS wrapper around the many useful methods in htslib. All the other perl modules use the old samtools or aren't on cpan. So far only Tabix is supported. Contributions welcome on github: <http://www.github.com/congenica/perl_htslib...

NYET/Bio-HTS-v0.0.1 - 11 Jan 2016 11:58:54 GMT - Search in distribution

Bio::DB::HTS - Read files using HTSlib including BAM/CRAM, Tabix and BCF database files

This module provides a Perl interface to the HTSlib library for indexed and unindexed SAM/BAM sequence alignment databases. It provides support for retrieving information on individual alignments, read pairs, and alignment coverage information across...

RISHIDEV/Bio-DB-HTS-2.7 - 03 Jan 2017 13:23:46 GMT - Search in distribution

Bio::ViennaNGS - A Perl distribution for Next-Generation Sequencing (NGS) data analysis

Bio::ViennaNGS is a distribution of Perl modules and utilities for building efficient Next-Generation Sequencing (NGS) analysis pipelines. It covers various aspects of NGS data analysis, including (but not limited to) conversion of sequence annotatio...

MTW/Bio-ViennaNGS-v0.17.1 - 10 Jun 2017 19:22:18 GMT - Search in distribution

CracTools::Utils - A set of useful functions

Bio::Lite is a set of subroutines that aims to answer similar questions as Bio-perl distribution in a FAST and SIMPLE way. Bio::Lite does not make use of complexe data struture, or objects, that would lead to a slow execution. All methods can be impo...

JAUDOUX/CracTools-1.251 - 09 Jun 2017 15:29:56 GMT - Search in distribution

lib/Bio/DB/BigBed.pm

This module provides a high-level interface to Jim Kent's BigBed files, a type of indexed genome feature database that can be randomly accessed across the network. Please see http://genome.ucsc.edu/FAQ/FAQformat.html for information about creating th...

LDS/Bio-BigFile-1.07 - 24 Feb 2012 17:20:46 GMT - Search in distribution

Bio::ToolBox::db_helper - helper interface to various database formats

These are helper subroutines to work with relevant databases that can be accessed through BioPerl modules. These include the Bio::DB::SeqFeature::Store relational database as well as Bio::DB::Fasta, Bio::DB::Sam, Bio::DB::HTS, Bio::DB::BigWig, Bio::D...

TJPARNELL/Bio-ToolBox-1.50 - 24 May 2017 03:33:55 GMT - Search in distribution

Alien::SamTools - Fetch/build/stash the SamTools headers and libs.

Download, build, and install the SamTools C headers and libraries into a well-known location, "File::ShareDir::dist_dir('Alien-SamTools')", from whence other packages can make use of them. It currently installs samtools-0.1.19.tar.bz2 <http://colocro...

HARTZELL/Alien-SamTools-0.002 - 17 Dec 2015 19:35:11 GMT - Search in distribution

Bio::Assembly::IO::sam - An IO module for assemblies in Sam format *BETA*

This is a (currently) read-only IO module designed to convert Sequence/Alignment Map (SAM; <http://samtools.sourceforge.net/>) formatted alignments to Bio::Assembly::Scaffold representations, containing .Bio::Assembly::Contig and Bio::Assembly::Singl...

CJFIELDS/BioPerl-1.007001 - 06 Nov 2016 04:02:23 GMT - Search in distribution

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