All Projects β†’ bioperl β†’ Bioperl Live

bioperl / Bioperl Live

Licence: other
Core BioPerl 1.x code

Programming Languages

perl
6916 projects

Projects that are alternatives of or similar to Bioperl Live

Csvtk
A cross-platform, efficient and practical CSV/TSV toolkit in Golang
Stars: ✭ 566 (+131.97%)
Mutual labels:  bioinformatics, toolkit
Bedops
πŸ”¬ BEDOPS: high-performance genomic feature operations
Stars: ✭ 215 (-11.89%)
Mutual labels:  bioinformatics, toolkit
Seqkit
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
Stars: ✭ 607 (+148.77%)
Mutual labels:  bioinformatics, toolkit
Deeppurpose
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
Stars: ✭ 342 (+40.16%)
Mutual labels:  bioinformatics, toolkit
Genometools
GenomeTools genome analysis system.
Stars: ✭ 186 (-23.77%)
Mutual labels:  bioinformatics, toolkit
Miniasm
Ultrafast de novo assembly for long noisy reads (though having no consensus step)
Stars: ✭ 216 (-11.48%)
Mutual labels:  bioinformatics
Hh Suite
Remote protein homology detection suite.
Stars: ✭ 230 (-5.74%)
Mutual labels:  bioinformatics
React Cytoscapejs
React component for Cytoscape.js network visualisations
Stars: ✭ 217 (-11.07%)
Mutual labels:  bioinformatics
Libagar
Cross-Platform GUI Toolkit (stable)
Stars: ✭ 212 (-13.11%)
Mutual labels:  toolkit
Cyvcf2
cython + htslib == fast VCF and BCF processing
Stars: ✭ 243 (-0.41%)
Mutual labels:  bioinformatics
Sourmash
Quickly search, compare, and analyze genomic and metagenomic data sets.
Stars: ✭ 237 (-2.87%)
Mutual labels:  bioinformatics
Staplr
PDF Toolkit. πŸ“Ž πŸ”¨ πŸ”§ βœ‚οΈ πŸ“‘ πŸ“πŸ“Ž πŸ”– 🚧 πŸ‘·
Stars: ✭ 221 (-9.43%)
Mutual labels:  toolkit
Spiceypy
SpiceyPy: a Pythonic Wrapper for the SPICE Toolkit.
Stars: ✭ 218 (-10.66%)
Mutual labels:  toolkit
Deep learning examples
Examples of using deep learning in Bioinformatics
Stars: ✭ 234 (-4.1%)
Mutual labels:  bioinformatics
Single Cell Pseudotime
An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
Stars: ✭ 239 (-2.05%)
Mutual labels:  bioinformatics
Awosome Bioinformatics
A curated list of resources for learning bioinformatics.
Stars: ✭ 214 (-12.3%)
Mutual labels:  bioinformatics
Xrtk Core
The Official Mixed Reality Framework for Unity
Stars: ✭ 219 (-10.25%)
Mutual labels:  toolkit
Homebrew Bio
πŸΊπŸ”¬ Bioinformatics formulae for the Homebrew package manager (macOS and Linux)
Stars: ✭ 237 (-2.87%)
Mutual labels:  bioinformatics
Bowtie
An ultrafast memory-efficient short read aligner
Stars: ✭ 221 (-9.43%)
Mutual labels:  bioinformatics
Phonia
Phonia Toolkit is one of the most advanced toolkits to scan phone numbers using only free resources. The goal is to first gather standard information such as country, area, carrier and line type on any international phone numbers with a very good accuracy.
Stars: ✭ 221 (-9.43%)
Mutual labels:  toolkit

DOI Build Status Coverage Status Documentation Status

About BioPerl

BioPerl is a project for development of free and open source Perl tools for computational molecular biology. For example, it includes classes for biological sequences, readers of multiple formats, sequence alignments, database searching objects, and interfaces to multiple programs such as EMBOSS, ClustalW, and BLAST.

The BioPerl project has developed multiple module distributions for different purposes. The one named BioPerl (named after the project) provides the foundation for all others distributions.

This is the repository for the BioPerl distribution only. Other distributions have their own repositories.

Installation

BioPerl distribution has the same name as the BioPerl. However, the BioPerl distribution only includes a subset of the project modules. Because of this, the meaning of "installing BioPerl" is rarely clear. Instead of "install BioPerl", the aim must be "install module X".

CPAN.org provides an overview on how to install and manage Perl modules but the bottom-line is:

  1. find the module you need, for example Bio::DB::EUtilities
  2. install it with cpanm, for example cpanm Bio::DB::EUtilities

Alternatively, some Linux distributions have packaged BioPerl and have it available through their package manager.

Documentation and Support

Documentation for individual modules is in POD and can also be read online at metacpan. Useful documentation in the form of example code can also be found in the examples/ and bin/ directories.

Additional resources and information about the project is available on the project website, with discussion happening on the [email protected] mailing list, and on the #bioperl channel of the freenode IRC server.

Bug reports are handle on the distribution github page.

Development

See the HACKING.md file for details on the project structure, such as building from source and running the test suite.

Note that the project description data, including the texts, logos, images, and/or trademarks, for each open source project belongs to its rightful owner. If you wish to add or remove any projects, please contact us at [email protected].