Bio::SeqHash - get one or more sequences from a FASTA file quickly. River stage zero No dependents

Currently, there do have some modules that can operate the FASTA file such as Bio::SeqIO, But it only provide some basic operation to obtain the information about sequence. In my daily work, I still have to write some repetitive code. So this module ...

PEKINGSAM/Bio-SeqHash-0.1.4 - 24 Nov 2017 09:28:21 UTC - Search in distribution

Bio::ToolBox - Tools for querying and analysis of genomic data River stage zero No dependents

The Bio::ToolBox libraries provide a useful interface for working with bioinformatic data. Many bioinformatic data analysis revolves around working with tables of information, including lists of genomic annotation (genes, promoters, etc.) or defined ...

TJPARNELL/Bio-ToolBox-1.67 - 09 Nov 2019 17:02:35 UTC - Search in distribution

Bio::fastAPD - rapid calculation of average pairwise difference (APD) for multiple sequence alignments River stage zero No dependents

The Bio::fastAPD module provides a computationally efficient method for the calculation of average pairwise difference (APD), a measure of nucleotide diversity, from multiple sequence alignment (MSA) data. This module also provides rapid standard err...

JDBAUGHER/Bio-fastAPD-1.10.0 - 08 Apr 2015 20:59:21 UTC - Search in distribution

Bio::EasyYang - A tiny interface for Bio::Tools::Run::Phylo::PAML::Yn00 module River stage zero No dependents

This module is a simple function to execute the Yang algorithm easily....

HVALVERDE/Bio-EasyYang-1 - 13 Nov 2012 10:46:20 UTC - Search in distribution

Bio::Gonzales - Speedy functions to manipulate biological data River stage one • 1 direct dependent • 1 total dependent

Introdution Motivation for this package is the lack of speed or ease of use or both in other modules. The main branches are grouped into Working with genomic features (representation, grouping, GFF3 input/output) Workgin with sequences (FASTA input/o...

JWB/Bio-Gonzales-0.082 - 07 Jun 2018 17:48:44 UTC - Search in distribution

Bio::Graphics - Generate GD images of Bio::Seq objects River stage one • 3 direct dependents • 3 total dependents

Please see Bio::Graphics::Panel for the full interface. Also try the script glyph_help.pl for quick help on glyphs and their options....

CJFIELDS/Bio-Graphics-2.40 - 16 Dec 2016 04:50:36 UTC - Search in distribution

Bio::Palantir - core classes and utilities for Bio::Palantir River stage zero No dependents

This distribution is the base of the "Bio::Palantir" module collection designed as a toolbox for handling the post-processing of antiSMASH report data (<https://antismash.secondarymetabolites.org>) and improving in some aspects its annotation of NRPS...

LMEUNIER/Bio-Palantir-0.201670 - 15 Jun 2020 14:24:40 UTC - Search in distribution

Bio::Protease - Digest your protein substrates with customizable specificity River stage zero No dependents

This module models the hydrolitic behaviour of a proteolytic enzyme. Its main purpose is to predict the outcome of hydrolitic cleavage of a peptidic substrate. The enzyme specificity is currently modeled for 37 enzymes/reagents. This models are somew...

BRUNOV/Bio-Protease-1.112980 - 25 Oct 2011 12:18:27 UTC - Search in distribution

Bio::WGS2NCBI - module to assist in submitting whole genome sequencing projects to NCBI River stage zero No dependents

This module documents the four actions (prepare, process, convert and compress) that are available to users of the wgs2ncbi script. Each of these steps is configured by one or more configuration files. In the documentation below, the relevant fields ...

RVOSA/Bio-WGS2NCBI-v0.1.2 - 23 Jan 2020 15:54:29 UTC - Search in distribution

Bio::BioEntry - DESCRIPTION of Object River stage zero No dependents

Describe the object here...

CJFIELDS/BioPerl-DB-1.006900 - 15 Apr 2011 19:35:57 UTC - Search in distribution

Bio::BPWrapper - command-line utilities for Bio::Perl River stage zero No dependents

ROCKY/Bio-BPWrapper-1.13 - 02 Apr 2020 19:04:03 UTC - Search in distribution


Bio::Community - A biological community River stage zero No dependents

The Bio::Community module represents communities of biological organisms. It is composed of Bio::Community::Member objects at a specified abundance. Each member can represent a species (e.g. an elephant, a bacterium), taxon, OTU, or any proxy for a s...

FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC - Search in distribution

Bio::FeatureIO - Handler for FeatureIO River stage zero No dependents

An I/O iterator subsystem for genomic sequence features. Bio::FeatureIO is a handler module for the formats in the FeatureIO set (eg, Bio::FeatureIO::GFF). It is the officially sanctioned way of getting at the format objects, which most people should...

CJFIELDS/Bio-FeatureIO-1.6.905 - 05 Sep 2014 17:34:58 UTC - Search in distribution

Bio::GenomeMap - Data structure store and query genomically indexed data efficiently using SQLite's R*Tree. River stage zero No dependents

TNISH/Bio-GenomeMap-0.03 - 29 May 2013 01:29:59 UTC - Search in distribution

Bio::MCPrimers River stage zero No dependents

Creates molecular cloning PCR primer pairs for a given gene so that the gene can be directionally inserted into a vector. Solver is generic, restriction enzymes and their order in the vector are specified in the caller....

SLENK/Bio-MCPrimers-2.5 - 13 Sep 2006 16:47:00 UTC - Search in distribution

Bio::Metabolic - Perl extension for representing and simulating metabolic networks River stage zero No dependents

OXE/Bio-Metabolic-0.07 - 05 Nov 2003 12:32:59 UTC - Search in distribution

Bio::Minimizer - minimizer package River stage zero No dependents

Creates a set of minimizers from sequence...

LSKATZ/Bio-Minimizer-0.8 - 22 Oct 2019 01:49:21 UTC - Search in distribution

Bio::SeqReader - Classes for reading sequence data. River stage zero No dependents

The Bio::SeqReader package provides classes specifically for reading sequence data. EXPORT None by default....

JAC/Bio-SeqReader-0.1.3 - 25 Sep 2012 04:13:30 UTC - Search in distribution

Bio::ViennaNGS - A Perl distribution for Next-Generation Sequencing (NGS) data analysis River stage zero No dependents

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

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