Search results for "Bio::SamTools"
Bio::Tradis::Samtools - Change samtools syntax depending on version found
AJPAGE/Bio-Tradis-1.4.5
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04 Dec 2019 14:41:26 UTC
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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-1.007003 - 08 Feb 2019 19:55:33 UTC - Search in distribution- Bio::Tools::Run::Samtools::Config - configurator for Bio::Tools::Run::Samtools
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 UTC - Search in distribution- Bio::DB::Bam::Query - Object representing the query portion of a BAM/SAM alignment
- Bio::DB::Bam::Pileup - Object passed to pileup() callback
- Bio::DB::Bam::Target - Object representing the query portion of a BAM/SAM alignment in NATIVE alignment
- 8 more results from Bio-SamTools »
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 UTC - 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 UTC - 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/CRAM sequence alignment databases. It provides support for retrieving information on individual alignments, read pairs, and alignment coverage information a...
AVULLO/Bio-DB-HTS-3.01 - 23 Apr 2019 13:51:11 UTC - 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-v0.19.2 - 11 Dec 2018 13:25:00 UTC - 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 UTC - 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 UTC - Search in distribution
Bio::ToolBox::db_helper - helper interface to various database formats
In most cases, this module does not need to be used directly. The methods available to Bio::ToolBox::Data and Bio::ToolBox::Data::Feature provide convenient access to the methods described here. These are helper subroutines to work with relevant data...
TJPARNELL/Bio-ToolBox-1.691 - 13 Oct 2022 18:07:52 UTC - Search in distribution
Bio::Tools::Run::WrapperBase - Extensions to WrapperBase for handling programs with commands *ALPHA*
This is a developer-focused experimental module. The main idea is to extend Bio::Tools::Run::WrapperBase to make it relatively easy to create run wrappers around *suites* of related programs, like "samtools" or "blast+". Some definitions: * program T...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution