Free Bioinformatics for Linux
Seal is a Python module that provides sequence alignment on Hadoop.Seal is a of MapReduce application for biological sequence alignment. It runs on Hadoop (http://hadoop.apache.org) through Pydoop (http://pydoop.sourceforge.net), a Python MapReduce and...
TRMiner is a Python utility that aims at scientific data curators. It allows to rapidly prune large collections of scientific publications to sentences relevant for a given mining goal.This is achieved in two steps. First, texts are tranlated into...
Pysam is a Python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API.The quick start guide is here. More detailed documentation is available here.Questions and comments are very welcome and should be send...
PySCeS is a project developed by the Triple-J Group for Molecular Cell Physiology in order to try model and understand the complex processes and systems which make up the living cell.Features:cursor-pointer" onclick="spovl3hide();"> Application...
goby is a Python API for reading binary data files created using the Goby next-gen data management framework.Normally, this directory comes as part of the complete Goby package, available from: http://goby.campagnelab.org/The complete package...
SSuMMo is a library of functions designed around iteratively using hmmer to assign sequences to taxa. Results are highly annotated trees showing species / genus distribution within that community.Programs included with the source code include tools...
Burrows-Wheeler Aligner (BWA) is an efficient program that aligns relatively short nucleotide sequences against a long reference sequence such as the human genome.The software implements two algorithms, bwa-short and BWA-SW. The former works for query...
PEAT is a suite of programs for capturing, predicting and analyzing biophysical characteristics of proteins.See http://enzyme.ucd.ie/PEAT for documentation, instructions, screenshots etc.Requirements:cursor-pointer" onclick="spovl3hide();"> System...
OpenElectrophy is a framework to facilitate manipulation, storage and analysis of electrophysiological data. It can import data from many different file formats and store them in a single SQL-type database.Analysis tools included in OpenELectrophy are...
NEO (Neural Ensemble Objects) and is a project to provide a common set of base classes to be used in neural data analysis, with the aim of getting OpenElectrophy, NeuroTools and maybe other projects with similar goals more close together.Two major...
