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59 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
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0. OOMPA - OOMPA is a suite of R packages for the analysis of gene expression (RNA), proteomics profiling , and other high throughput molecular biology data. OOMPA uses S4 classes to construct object-oriented tools with a consistent user interface.
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- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : Artistic License [Filter]
- Natural Language : English [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Cluster Analysis [Filter]
- Topic : Multivariate Statistics [Filter]
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Activity Percentile: 14.29
Registered: 2013-08-29 17:48 |
1. WaveSeqR - Public repository of R-package WaveSeqR which implements the ChIP-Seq analysis algorithm WaveSeq DOI: 10.1371/journal.pone.0045486.
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- Development Status : 4 - Beta [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : MacOS [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : Perl [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Biostatistics & Medical Statistics [Filter]
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Activity Percentile: 0.00
Registered: 2013-11-21 21:46 |
2. ddepn - DDEPN (Dynamic Deterministic Effects Propagation Networks): Infer signalling networks for high-throughput genomic or proteomic timecourse data, generated after external perturbation like activation or inhibition of network nodes.
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- Development Status : 5 - Production/Stable [Filter]
- Environment : Console (Text Based) [Filter]
- Environment : X11 Applications [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows : Windows NT/2000/XP [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Graphical Models [Filter]
- Topic : Time Series [Filter]
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Activity Percentile: 0.00
Registered: 2011-06-10 12:24 |
4. cRacker - cRacker automates standard normalization strategies of quantitative proteomic experiments. It simplifies the analysis of quantified peptide lists coming from various proteomic quantitation softwares.
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- Development Status : 4 - Beta [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Bioinformatics : Visualization [Filter]
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Activity Percentile: 0.00
Registered: 2012-07-12 22:01 |
5. plsgenomics: PLS analyses for genomics - This package provides routines for PLS-based genomic analyses. It implements PLS methods for classification with microarray and Next Generation Sequencing data, prediction of transcription factor activities from combined ChIP-chip analysis.
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- Development Status : 5 - Production/Stable [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Natural Language : French [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Multivariate Statistics : Projection Methods [Filter]
- Topic : Multivariate Statistics : Supervised Classification and Discriminant Analysis [Filter]
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Activity Percentile: 0.00
Registered: 2014-10-30 14:27 |
6. msap - The package msap provides a easy way to analyse MSAP (Methylation-Sensible Amplified Polymorphism) data in order to asses epigenetic and genetic differences between groups of samples.
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- Development Status : 5 - Production/Stable [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : OS Independent [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Genetics : Population Genetics [Filter]
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Registered: 2012-06-13 23:35 |
7. Layered and chained mixture models - Layered and chained mixture models for various univariate and multivariate distributions.
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- Development Status : 3 - Alpha [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Multivariate Statistics : Multivariate Distributions [Filter]
- Topic : Multivariate Statistics : Unsupervised Classification [Filter]
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Activity Percentile: 0.00
Registered: 2011-05-10 07:45 |
8. MeDiChI - R package implementing model based deconvolution of ChIP-chip (transcription factor binding) data, as published in Bioinformatics journal.
Please visit http://baliga.systemsbiology.net/medichi for source code, instructions, and R package downloads.
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- Development Status : 5 - Production/Stable [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : OS Independent [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Machine Learning : Regularized and Shrinkage Methods [Filter]
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Registered: 2010-05-14 17:13 |
9. SMfSB - R code associated with the second and third editions of the book Stochastic Modelling for Systems Biology, by Darren J Wilkinson, published by Chapman & Hall/CRC Press.
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- Development Status : 5 - Production/Stable [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : End Users/Desktop [Filter]
- Intended Audience : Other Audience [Filter]
- License : OSI Approved : GNU Lesser General Public License (LGPL) [Filter]
- Natural Language : English [Filter]
- Operating System : OS Independent [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R [Filter]
- Topic : Bayesian Statistics : Specific Model Fitting [Filter]
- Topic : Bioinformatics : Statistics [Filter]
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Activity Percentile: 0.00
Registered: 2011-02-18 14:08 |
10. Peirce - Illustrate Peirces criterion for rejection of outliers from a normal distribution.
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- Development Status : 4 - Beta [Filter]
- Environment : Other Environment [Filter]
- Intended Audience : Developers [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
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Activity Percentile: 0.00
Registered: 2012-09-07 07:56 |
11. Data Analysis Using Regression - R functions for processing lm, glm, and polr outputs. This is a lite version of arm that does not deal with mer class.
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- Development Status : 1 - Planning [Filter]
- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop [Filter]
- Intended Audience : System Administrators [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : R [Filter]
- Topic : Bayesian Statistics : General Model Fitting [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Bioinformatics : Visualization [Filter]
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Activity Percentile: 0.00
Registered: 2008-07-24 04:32 |
12. calibayesR - The package also provides a web-serivce interface to the CaliBayes system. See http://www.calibayes.ncl.ac.uk for more details.
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- Development Status : 4 - Beta [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU Lesser General Public License (LGPL) [Filter]
- Natural Language : English [Filter]
- Operating System : Microsoft [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : R [Filter]
- Topic : Bayesian Statistics : Specific Model Fitting [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : High Performance Computing : Grid Computing [Filter]
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Activity Percentile: 0.00
Registered: 2009-11-30 09:36 |
13. The forensim package - The forensim package for the R environment provides statistical tools dedicated to the interpretation of forensic DNA mixtures
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- Development Status : 4 - Beta [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Natural Language : French [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Genetics : Population Genetics [Filter]
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Activity Percentile: 0.00
Registered: 2009-04-17 15:10 |
14. UMPIRE - UMPIRE provides tools to simulate realistic biological expression data. It includes additive and multiplicative noise, correlated expression, inactive genes, and a link to outcome data that incorporates the multi-hit cancer model.
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- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : Artistic License [Filter]
- Natural Language : English [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Multivariate Statistics [Filter]
- Topic : Other/Nonlisted Topic [Filter]
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Activity Percentile: 0.00
Registered: 2014-02-03 16:37 |
15. Testing HWE for Multiallelic Genes - This package calculates plain and fully conditional P-values for the root-mean-square statistic, chi-square statistic, and log likelihood-ratio statistic for the user-provided genotype counts to be consistent with the Hardy-Weinberg equilibrium model.
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- Development Status : 4 - Beta [Filter]
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop [Filter]
- Intended Audience : Other Audience [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
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Activity Percentile: 0.00
Registered: 2012-07-03 03:50 |
16. GenABEL - A suite of packages for statistical genomics
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- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Genetics : Linkage, LD and Haplotype Mapping [Filter]
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Registered: 2009-08-12 17:07 |
17. Class Prediction - A suite of packages that can bu used for "class prediction" problems. Includes tools to standardize training-testing regimens and cross-validation schemes.
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- Development Status : 5 - Production/Stable [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : Artistic License [Filter]
- Natural Language : English [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Machine Learning [Filter]
- Topic : Multivariate Statistics : Supervised Classification and Discriminant Analysis [Filter]
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Activity Percentile: 0.00
Registered: 2014-02-03 16:15 |
18. therese - The purpose of this package is to propose a method for inferring networks from expression data obtained in various experimental condition. The "cLasso" (consensus Lasso) method is implemented.
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- Development Status : 3 - Alpha [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : OS Independent [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Regression Models [Filter]
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Activity Percentile: 0.00
Registered: 2013-07-05 08:44 |
19. sonicLength - sonicLength estimates the abundances of cells marked with integrated DNA using DNA fragment length data. Also included are tools for random number generation apropos to fragment lengths, simulating datasets, and jackknifing multiple replicates
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- Development Status : 5 - Production/Stable [Filter]
- Environment : Console (Text Based) [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Operating System : OS Independent [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Medical Science [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Genetics [Filter]
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Activity Percentile: 0.00
Registered: 2011-09-14 03:27 |
59 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
<1>
