BioScript – Python Library of Bioinformatics Scripts

BioScript

:: DESCRIPTION

BioScript is a python library aiming at regrouping & running bioinformatics scripts through a common and simple interface. It can be used at the command line or using a web service. Bioinformatics scripts are displayed and used as a traditional `form` way.

::DEVELOPER

the EPFL Bioinformatics and Biostatistcs core facility

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / MacOsX
  • Python

:: DOWNLOAD

  BioScript

:: MORE INFORMATION

BioBlend 0.6.1 – Python library for interacting with CloudMan and Galaxy‘s API

BioBlend 0.6.1

:: DESCRIPTION

BioBlend is a unified API in a high-level language (python) that wraps the functionality of Galaxy and CloudMan APIs.

::DEVELOPER

Enis Afgan

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/MacOsX/Linux
  • Python

:: DOWNLOAD

 BioBlend

:: MORE INFORMATION

Citation

Bioinformatics. 2013 Jul 1;29(13):1685-6. doi: 10.1093/bioinformatics/btt199. Epub 2013 Apr 28.
BioBlend: automating pipeline analyses within Galaxy and CloudMan.
Sloggett C1, Goonasekera N, Afgan E.

PeptideBuilder 1.0.1 – Python Library to Generate Model Peptides

PeptideBuilder 1.0.1

:: DESCRIPTION

PeptideBuilder is a simple Python library to construct models of polypeptides from scratch.

::DEVELOPER

Claus Wilke’s lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • Python

:: DOWNLOAD

 PeptideBuilder

:: MORE INFORMATION

Citation

Tien MZ, Sydykova DK, Meyer AG, Wilke CO. (2013)
PeptideBuilder: A simple Python library to generate model peptides.
PeerJ 1:e80

Pyvolve 0.7.2 – Python Library to Simulate Evolutionary Sequence data

Pyvolve 0.7.2

:: DESCRIPTION

Pyvolve is an open-source Python module for simulating sequences along a phylogenetic tree according to continuous-time Markov models of sequence evolution.

::DEVELOPER

Stephanie J. Spielman @Claus Wilke’s lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • Python

:: DOWNLOAD

 Pyvolve

:: MORE INFORMATION

Citation

Pyvolve: A Flexible Python Module for Simulating Sequences along Phylogenies.
Spielman SJ, Wilke CO.
PLoS One. 2015 Sep 23;10(9):e0139047. doi: 10.1371/journal.pone.0139047.

EggLib 2.1.10 – C++/Python library and program package for Evolutionary Genetics and Genomics

EggLib 2.1.10

:: DESCRIPTION

EggLib is a C++/Python library and program package for evolutionary genetics and genomics. Main features are sequence data management, sequence polymorphism analysis, coalescent simulations and Approximate Bayesian Computation.

::DEVELOPER

EggLib team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux / MacOsX
  • Python/C++ Compiler

:: DOWNLOAD

 EggLib

:: MORE INFORMATION

Citation

De Mita S. and M. Siol. 2012.
EggLib: processing, analysis and simulation tools for population genetics and genomics.
BMC Genet. 13:27.

enrichment 1.0b – Python library to Evaluate the over or under representation of Occurrences in a list

enrichment 1.0b

:: DESCRIPTION

enrichment (subset of the xstats package) is a Python library providing two methods to perform enrichment analysis, such as gene set enrichment analysis in bioinformatics.

::DEVELOPER

Systems Biology Lab, Institut Pasteur, Paris

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Linux/ Windows/ MacOsX
  • Python

:: DOWNLOAD

 enrichment

:: MORE INFORMATION

SRTOOLS – Python Library for Short Read Analysis.

SRTOOLS

:: DESCRIPTION

SRTOOLS is python library providing classes and function for short read analysis.

::DEVELOPER

Dr Tony Papenfuss (papenfuss@wehi.edu.au) @ WEHI Bioinformatics

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows / Mac OsX
  • Python

:: DOWNLOAD

 SRTOOLS

:: MORE INFORMATION

MUNGO 1.0 – Python Library of Sequence Analysis

MUNGO 1.0

:: DESCRIPTION

MUNGO is a python library supporting parsing, manipulation and visualisation of sequence analysis results

::DEVELOPER

Dr Tony Papenfuss (papenfuss@wehi.edu.au) @ WEHI Bioinformatics

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows / Mac OsX
  • Python

:: DOWNLOAD

 MUNGO

:: MORE INFORMATION