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26 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
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0. MELON - Methylation Enriched LOci Normalization for genome-wide DNA methylation experiments
Development Status : 3 - Alpha [Filter] Intended Audience : Developers [Filter] Intended Audience : End Users/Desktop [Filter] Programming Language : R (Now Filtering) Topic : Bioinformatics [Filter] Topic : Biostatistics & Medical Statistics [Filter] Topic : Genetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2012-04-18 14:21

1. Low Rank Gaussian Process Regression - Fit a Low Rank Gaussian Process Regression / Linear Mixed Model for large datasets. These models are widely used in statistical genetics as a test of association while correcting for the confounding effects of kinship and population structure.
Environment : Console (Text Based) [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 : C/C\+\+ [Filter] Programming Language : R (Now Filtering) Topic : Bioinformatics : Statistics [Filter] Topic : Genetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2013-12-19 15:12

2. CNVScope - CNVScope: Visually exploring copy number aberrations in cancer genomes

Development Status : 5 - Production/Stable [Filter]
Environment : Console (Text Based) [Filter]
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Intended Audience : Developers [Filter]
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License : OSI Approved : BSD License [Filter]
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Natural Language : English [Filter]
Operating System : Microsoft : Windows : Windows NT/2000/XP [Filter]
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Programming Language : R (Now Filtering)
Topic : Bioinformatics : Visualization [Filter]
Topic : Genetics (Now Filtering)
Topic : High Performance Computing [Filter]

Activity Percentile: 0.00

Registered: 2019-07-16 15:34

3. 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 [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English [Filter] Operating System : POSIX : Linux [Filter] Programming Language : R (Now Filtering) Topic : Bioinformatics [Filter] Topic : Genetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2011-08-17 20:46

4. casper - casper infers alternative splicing from high-throughput sequencing data both for known variants and de novo discovery. We use a Bayesian model with few assumptions, and modern model selection ideas with improved theoretical and computational properties.

Development Status : 4 - Beta [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 : C/C\+\+ [Filter]
Programming Language : R (Now Filtering)
Topic : Bayesian Statistics [Filter]
Topic : Bioinformatics : Statistics [Filter]
Topic : Genetics (Now Filtering)

Activity Percentile: 0.00

Registered: 2011-10-11 08:51

5. Non-Additive Inverses - A package to construct Non-Additive Genetic relatedness matrices and their generalized inverses for inclusion in quantitative genetic analyses using the 'animal model'.

Development Status : 5 - Production/Stable [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 : Fortran [Filter]
Programming Language : R (Now Filtering)
Topic : Biostatistics & Medical Statistics [Filter]
Topic : Genetics (Now Filtering)
Topic : Multivariate Statistics : Linear Models [Filter]

Activity Percentile: 0.00

Registered: 2011-11-10 03:57

6. Genome-wide analysis using MOSS - Performs genome-wide analysis of dense SNP array data using the mode oriented stochastic search (MOSS) algorithm in a case-control design. Includes preprocessing of the data from Plink format to the format required by the MOSS algorithm.

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]
Operating System : POSIX : Linux [Filter]
Programming Language : C/C\+\+ [Filter]
Programming Language : Fortran [Filter]
Programming Language : R (Now Filtering)
Topic : Bayesian Statistics [Filter]
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Topic : Graphical Models [Filter]

Activity Percentile: 0.00

Registered: 2011-01-07 17:53

7. Sublogo dendrograms - Sublogo dendrograms are statistical graphics that reveal correlation in biological sequence alignments.

Development Status : 5 - Production/Stable [Filter]
Environment : Console (Text Based) [Filter]
Environment : Web Environment [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 : POSIX : Linux [Filter]
Programming Language : PHP [Filter]
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Programming Language : Unix Shell [Filter]
Topic : Bioinformatics : Visualization [Filter]
Topic : Genetics (Now Filtering)
Topic : Graphics : Plotting [Filter]

Registered: 2009-06-19 09:14

8. aroma.* packages [MOVED TO GITHUB] - This repository and all of its packages have been moved to https://github.com/HenrikBengtsson/

Development Status : 3 - Alpha [Filter]
Development Status : 4 - Beta [Filter]
Development Status : 5 - Production/Stable [Filter]
Environment : Console (Text Based) [Filter]
Environment : No Input/Output (Daemon) [Filter]
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Natural Language : English [Filter]
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Programming Language : R (Now Filtering)
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Registered: 2009-05-19 20:01

9. synbreed - Collection of statistical and genetic methods developed for the synbreed project for synergistic plant and animal breeding.

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 : German [Filter]
Operating System : Microsoft : Windows [Filter]
Operating System : POSIX : Linux [Filter]
Programming Language : R (Now Filtering)
Topic : Bioinformatics : Statistics [Filter]
Topic : Bioinformatics : Visualization [Filter]
Topic : Genetics (Now Filtering)

Activity Percentile: 0.00

Registered: 2010-03-05 10:51

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 [Filter]
License : OSI Approved : GNU General Public License (GPL) [Filter]
Natural Language : English [Filter]
Natural Language : German [Filter]
Operating System : MacOS [Filter]
Operating System : Microsoft : Windows [Filter]
Operating System : POSIX : Linux [Filter]
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Registered: 2013-05-29 18:34

11. Statistical analysis of DNA mixtures - Statistical analysis of mixed traces of DNA with artefacts. Features include parameter-fitting, visual diagnostics, evaluation of the likelihood, and genotype prediction. Full functionality requires a licenced copy of Hugin (www.hugin.com).
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] Operating System : OS Independent [Filter] Programming Language : R (Now Filtering) Topic : Genetics (Now Filtering) Topic : Graphical Models [Filter]	Activity Percentile: 0.00 Registered: 2013-07-07 18:26

12. plantbreeding - plantbreeding: R Software package for analysis and visualization of data from plant breeding and genetics experiments.
Development Status : 4 - Beta [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English [Filter] Operating System : Microsoft : Windows [Filter] Programming Language : R (Now Filtering) Topic : Bioinformatics : Statistics [Filter] Topic : Design of Experiments & Analysis of Experimental Data [Filter] Topic : Genetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2012-07-01 21:32

13. RFLPtools - RFLPtools provides functions to analyse DNA fragment samples (i.e. derived from RFLP-analysis) and standalone BLAST report files (i.e. DNA sequence analysis).

Development Status : 4 - Beta [Filter]
Intended Audience : Developers [Filter]
License : OSI Approved : GNU Lesser General Public License (LGPL) [Filter]
Natural Language : English [Filter]
Natural Language : German [Filter]
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Programming Language : R (Now Filtering)
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Topic : Genetics (Now Filtering)

Activity Percentile: 0.00

Registered: 2010-02-24 09:24

14. 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]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
License : OSI Approved : GNU Lesser General Public License (LGPL) [Filter]
Natural Language : English [Filter]
Operating System : OS Independent [Filter]
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Registered: 2013-04-11 08:27

15. umx: A helper library for SEM in OpenMx - umx provides functions making it easy to build, run, modify, and report the results of Structural Equation Models (SEM) using OpenMx. Examples include setting start values: umxStart(); labels: umxLabel(); and reporting; umxSummary().

Development Status : 4 - Beta [Filter]
Environment : Console (Text Based) [Filter]
Intended Audience : End Users/Desktop [Filter]
License : OSI Approved : Artistic License [Filter]
Natural Language : English [Filter]
Operating System : MacOS [Filter]
Operating System : Microsoft : Windows [Filter]
Operating System : POSIX : BSD [Filter]
Programming Language : R (Now Filtering)
Topic : Genetics (Now Filtering)
Topic : Multivariate Statistics [Filter]
Topic : Optimization : General Purpose Continuous Solvers [Filter]

Activity Percentile: 0.00

Registered: 2013-08-28 13:52

16. 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]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
Natural Language : English [Filter]
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Programming Language : Java [Filter]
Programming Language : R (Now Filtering)
Topic : Bioinformatics [Filter]
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Topic : Social Sciences [Filter]

Activity Percentile: 0.00

Registered: 2011-08-19 15:59

17. 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 [Filter]
License : OSI Approved : GNU General Public License (GPL) [Filter]
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Programming Language : R (Now Filtering)
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Registered: 2010-01-08 10:31

18. Parent-specific DNA copy numbers (abo) - Paired PSCBS: Parent-specific copy number in paired tumor-normal studies using circular binary segmentation (CBS). Packages in this project: PSCBS.
Development Status : 3 - Alpha [Filter] Development Status : 4 - Beta [Filter] Intended Audience : Developers [Filter] Intended Audience : End Users/Desktop [Filter] Natural Language : English [Filter] Operating System : OS Independent [Filter] Programming Language : R (Now Filtering) Topic : Bioinformatics [Filter] Topic : Genetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2009-10-20 01:21

19. Priority Index - Priority Index or PI accelerates target selection through networking genetic evidence.

Development Status : 3 - Alpha [Filter]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
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Activity Percentile: 0.00

Registered: 2016-04-21 23:06

26 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
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