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COHCAP (City of Hope CpG Island Analysis Pipeline, pronounced "co-cap") is an algorithm to analyze single-nucleotide resolution methylation data (Illumina 450k methylation array, targeted BS-Seq, etc.).
Please note:
1) The SourceForge version of COHCAP is no longer being updated. Please see the GitHub version:
https://github.com/cwarden45/COHCAP
This was the source repository for the Bioconductor version, with some changes after the decision to only provide the code through...
Analysing high-throughput sequencing data with Python
This SourceForge page is outdated!
HTSeq has been moved to github: https://github.com/simon-anders/htseq
General information and documentation on HTSeq; http://www-huber.embl.de/users/anders/HTSeq
JGAP is a Genetic Algorithms and Genetic Programming package written in Java. It is designed to require minimum effort to use, but is also designed to be highly modular. JGAP features grid functionality and a lot of examples. Many unit tests included.
Legal notice/Impressum:
Klaus Meffert
An der Struth 25
D-65510 Idstein
sourceforge <at> klausmeffert.de
A hackathon for the analysis of disease outbreaks in R
This is the sourceforge project supporting "Hackout: A hackathon for the analysis of disease outbreaks in R".
It includes a repository for the collective development of the project's R package.
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VANTED - Visualization and Analysis of NeTworks containing Experimental Data
At SourceForge the VANTED development history is preserved, only limited amount of development will proceed here. Please head on to the most recent developments, which can be observed at www.vanted.org.
Software for making Clusters of Orthologous Groups (featuring the new EdgeSearch algorithm). Latest ref: Kristensen DM, Kannan L, Coleman MK, Wolf YI, Sorokin A, Koonin EV, Mushegian A. Bioinformatics 2010.
Taverna is *no longer* hosted on SourceForge, but has moved to the Apache Software Foundation: https://taverna.apache.org
These pages and mailing list archives are provided for *archival purposes* for older Taverna 1.x releases.
See https://taverna.apache.org/download/ for the latest releases from Apache Taverna.
Cellontro models and simulates cells, other biological entities, and biochemical networks. Specify your models using XML and Java, or SBML. Cellontro is now completely contained within the Xholon sourceforge project.
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