Software Map
Project Tree
Now limiting view to projects in the following categories:
Programming Language :: R [Remove This Filter]
Intended Audience :: End Users/Desktop [Remove This Filter]
Natural Language :: English [Remove This Filter]
Topic :: Bioinformatics [Remove This Filter]
39 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
<1>
0. NameNeedle - Using Needleman-Wunsch to Match Sample Names
|
- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Text [Filter]
|
Activity Percentile: 0.00
Registered: 2014-02-03 16:21 |
1. Illumina Methylation Analyzer - This IMA package provided a pipeline to analyze Illumina’s 450k Infinium Methylation data. We aimed to find the differential methylated CpG island on user-customized annotated regions as well as individual site by using different methods.
|
- Development Status : 2 - Pre-Alpha [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : POSIX : Linux [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Genetics [Filter]
|
Activity Percentile: 0.00
Registered: 2011-08-17 20:46 |
2. opm and opmdata - Analysing phenotype microarrays and growth curves: plots, curve parameters, discretization, metadata, simultaneous tests, pathways, genome annotation, feature selection, textual reports, YAML, database I/O; see also opm.dsmz.de and www.goeker.org/opm
|
- Development Status : 5 - Production/Stable [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
|
Registered: 2013-01-17 23:06 |
3. Corbi - A collection of bioinformatics tools for general purposes such as network query, protein structure alignment, gene expression analysis.
|
- Development Status : 4 - Beta [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- Intended Audience : Other Audience [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
|
Activity Percentile: 0.00
Registered: 2011-09-26 05:04 |
4. dnet - dnet is an open-source R package for integrative analysis of digitised data in terms of network, ontology and evolution, including: identification and visualisation of gene-active dynamic subnetworks; random walk with restart; and enrichment analysis
|
- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Datasets [Filter]
|
Activity Percentile: 0.00
Registered: 2014-01-22 14:22 |
5. LDExplorer - LDExplorer is an R package for the memory and time efficient whole-genome LD based haplotype block recognition.
|
- Environment : Console (Text Based) [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Genetics : Linkage, LD and Haplotype Mapping [Filter]
|
Registered: 2013-01-21 21:13 |
6. SegAnnot - SegAnnot calculates the least squares segmentation for piecewise constant annotated noisy signals.
|
- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Optimization : Mathematical Programming : Global Optimization [Filter]
- Topic : Time Series [Filter]
|
Registered: 2012-11-27 16:58 |
7. cMonkey - cMonkey integrated biclustering algorithm for learning co-regulated gene modules.
Please visit http://cmonkey.systemsbiology.net for source code, documentation, and R packages.
|
- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Cluster Analysis : Other Cluster Algorithms [Filter]
- Topic : Multivariate Statistics : Supervised Classification and Discriminant Analysis [Filter]
|
Registered: 2010-05-14 17:19 |
8. TreEvo - TreEvo (TREE + EVOlution) is a package for approximate Bayesian computation for comparative methods.
|
- Development Status : 3 - Alpha [Filter]
- Environment : Console (Text Based) [Filter]
- Environment : Other Environment [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Genetics : Phylogenetics [Filter]
|
Activity Percentile: 0.00
Registered: 2008-07-23 21:21 |
9. Breakpoint detection error - Functions for calculating the breakpoint detection error, which can be used for segmentation model selection.
|
- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
|
Registered: 2012-11-27 16:51 |
10. cgen - Parallel Genomic Prediction and GWAS in R using Eigen and Rcpp
|
- Development Status : 4 - Beta [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Natural Language : German [Filter]
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Genetics [Filter]
- Topic : High Performance Computing [Filter]
|
Activity Percentile: 0.00
Registered: 2013-05-29 18:34 |
11. RMesquite - RMesquite establishes interoperability between Mesquite (http://mesquiteproject.org) and R. It exposes Mesquite methods transparently as R functions that consume and provide native R data types, and converts seamlessly between Java and R data types.
|
- Development Status : 3 - Alpha [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : Java [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Genetics : Phylogenetics [Filter]
- Topic : Multivariate Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2008-07-17 03:57 |
12. HTSanalyzeR - HTSanalyzeR provides state-of-the-art analysis methods of pathway and network enrichment for High-Throughput Screens in a unified framework and provides easy-to-understand HTML output
|
- Development Status : 4 - Beta [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Biostatistics & Medical Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2010-06-28 19:28 |
13. CRImage - CRImage is a package to process and analyze biological images.
|
- Development Status : 4 - Beta [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Biostatistics & Medical Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2010-06-27 11:26 |
14. Mixed-pair mutual information estimators - Fast calculation mutual information for comparisons between all types of variables including continuous vs continuous, continuous vs discrete and discrete vs discrete. Also provides jackknife bias correction and tests for association.
|
- Development Status : 4 - Beta [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : Fortran [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : High Performance Computing [Filter]
- Topic : Machine Learning [Filter]
|
Activity Percentile: 0.00
Registered: 2012-08-10 08:48 |
15. Atlas and Analysis - Atlas and Analysis (A2) of pathways (curated)
|
- Development Status : 3 - Alpha [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
|
Activity Percentile: 0.00
Registered: 2018-01-19 16:21 |
16. CellMix - Resources for performing gene expression deconvolution in R, i.e. estimating cell proportions and/or cell-specific gene expression from global gene expression measured in heterogeneous samples.
Currently hosted packages: csSAM and CellMix packages.
|
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- License : OSI Approved : GNU Lesser General Public License (LGPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Genetics [Filter]
- Topic : Software Development [Filter]
|
Activity Percentile: 0.00
Registered: 2013-04-11 08:27 |
17. RNetLogo (Discontinued) - RNetLogo is an interface to the agent-based modelling plattform NetLogo. NL can be embedded into the R environment with headless (no GUI) and interactive GUI mode. It provides functions to load models, execute commands and to get values from reporters.
|
- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- Intended Audience : Other Audience [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : Java [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Genetics [Filter]
- Topic : Social Sciences [Filter]
|
Activity Percentile: 0.00
Registered: 2011-08-19 15:59 |
18. LazyMLVA - This project automates assignment of MLVA (Multiple locus VNTR (Variable-Number-of-Tandem-Repeats) Analysis) types from files straight out of the sequencer.
|
- Development Status : 2 - Pre-Alpha [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Genetics [Filter]
|
Activity Percentile: 0.00
Registered: 2010-01-08 10:31 |
19. NMF - Nonnegative Matrix Factorization - This package provides a flexible framework to perform Non-negative Matrix Factorization (NMF).
It implements a set of already published algorithms and seeding methods, and provides a framework
to test, develop and plug new/custom algorithms.
|
- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop (Now Filtering)
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English (Now Filtering)
- Operating System : OS Independent [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics (Now Filtering)
- Topic : Multivariate Statistics : Projection Methods : Independent Components [Filter]
- Topic : Optimization [Filter]
|
Activity Percentile: 0.00
Registered: 2010-01-07 14:13 |
39 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
<1>
