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Topic > Genetics

Linkage, LD and Haplotype Mapping (8 project)
Multiple Testing (4 project)
Phylogenetics (20 project)
Population Genetics (12 project)
QTL Mapping (3 project)

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27 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
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0. 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] Natural Language : English [Filter] Operating System : OS Independent [Filter] Programming Language : R [Filter] Topic : Bioinformatics [Filter] Topic : Genetics [Filter]	Activity Percentile: 0.00 Registered: 2010-01-08 10:31

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 [Filter] Topic : Bioinformatics : Statistics [Filter] Topic : Genetics [Filter]	Activity Percentile: 0.00 Registered: 2013-12-19 15:12

2. genoPlotR - plot gene and genome maps - genoPlotR is a R package to produce reproducible, publication-grade graphics of gene and genome maps. It allows the user to read from usual format such as protein table files and blast results, as well as home-made tabular files.

Development Status : 5 - Production/Stable [Filter]
Environment : Console (Text Based) [Filter]
Environment : X11 Applications [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 : MacOS [Filter]
Operating System : Microsoft : Windows [Filter]
Operating System : POSIX : Linux [Filter]
Programming Language : R [Filter]
Topic : Bioinformatics : Visualization [Filter]
Topic : Genetics [Filter]

Activity Percentile: 0.00

Registered: 2010-01-08 16:59

3. 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 [Filter] Topic : Bioinformatics [Filter] Topic : Biostatistics & Medical Statistics [Filter] Topic : Genetics [Filter]	Activity Percentile: 0.00 Registered: 2012-04-18 14:21

4. 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]
Operating System : OS Independent [Filter]
Programming Language : C/C\+\+ [Filter]
Programming Language : R [Filter]
Topic : Bioinformatics [Filter]
Topic : Genetics [Filter]

Activity Percentile: 0.00

Registered: 2010-02-24 09:24

5. SeqinR: Biological Sequences in R - The seqinR package for the R environment contains utilities to retrieve and analyse biological sequences.

Development Status : 5 - Production/Stable [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 [Filter]
Topic : Database : R Interfaces [Filter]
Topic : Genetics [Filter]

Activity Percentile: 0.00

Registered: 2008-07-28 09:03

6. 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]
Environment : Web Environment [Filter]
Intended Audience : Developers [Filter]
Intended Audience : End Users/Desktop [Filter]
License : OSI Approved : GNU Lesser General Public License (LGPL) [Filter]
License : Other/Proprietary License [Filter]
Natural Language : English [Filter]
Operating System : OS Independent [Filter]
Programming Language : R [Filter]
Topic : Bioinformatics [Filter]
Topic : Database [Filter]
Topic : Genetics [Filter]

Activity Percentile: 0.00

Registered: 2009-05-19 20:01

7. 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 [Filter]
Topic : Bioinformatics : Statistics [Filter]
Topic : Bioinformatics : Visualization [Filter]
Topic : Genetics [Filter]

Activity Percentile: 0.00

Registered: 2010-03-05 10:51

8. 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

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]

Activity Percentile: 0.00

Registered: 2011-09-14 03:27

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

Development Status : 3 - Alpha [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 : MacOS [Filter]
Operating System : Microsoft : Windows [Filter]
Operating System : POSIX : Linux [Filter]
Programming Language : R [Filter]
Topic : Bioinformatics [Filter]
Topic : Genetics [Filter]
Topic : Software Development [Filter]

Activity Percentile: 0.00

Registered: 2016-04-21 23:06

10. 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 [Filter] Topic : Bioinformatics [Filter] Topic : Genetics [Filter]	Activity Percentile: 0.00 Registered: 2011-08-17 20:46

11. GWAtoolbox - An R-package implemented for genome-wide association studies. The main feature is very vast quality check of data before meta-analysis. It provides an extensive list of quality statistics presented using easy-to-use DHTML and graphical outputs.

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 : MacOS [Filter]
Operating System : Microsoft : Windows [Filter]
Operating System : POSIX : Linux [Filter]
Programming Language : C/C\+\+ [Filter]
Programming Language : R [Filter]
Topic : Bioinformatics : Medical Science [Filter]
Topic : Genetics [Filter]

Activity Percentile: 0.00

Registered: 2011-03-23 10:20

12. 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 [Filter] Topic : Genetics [Filter] Topic : Graphical Models [Filter]	Activity Percentile: 0.00 Registered: 2013-07-07 18:26

13. 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 [Filter]
Topic : Biostatistics & Medical Statistics [Filter]
Topic : Genetics [Filter]
Topic : Multivariate Statistics : Linear Models [Filter]

Activity Percentile: 0.00

Registered: 2011-11-10 03:57

14. 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]
Programming Language : R [Filter]
Programming Language : Unix Shell [Filter]
Topic : Bioinformatics : Visualization [Filter]
Topic : Genetics [Filter]
Topic : Graphics : Plotting [Filter]

Registered: 2009-06-19 09:14

15. LNA for stochastic kinetic models - An R package for likelihood-based inference of stochastic kinetic models using a Linear Noise Approximation.
Development Status : 3 - Alpha [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Operating System : POSIX [Filter] Programming Language : C/C\+\+ [Filter] Programming Language : Fortran [Filter] Topic : Genetics [Filter]	Activity Percentile: 0.00 Registered: 2011-05-25 19:48

16. 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 [Filter] Topic : Bioinformatics [Filter] Topic : Genetics [Filter]	Activity Percentile: 0.00 Registered: 2009-10-20 01:21

17. 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]
Programming Language : C/C\+\+ [Filter]
Programming Language : R [Filter]
Topic : Bioinformatics [Filter]
Topic : Genetics [Filter]
Topic : High Performance Computing [Filter]

Activity Percentile: 0.00

Registered: 2013-05-29 18:34

18. 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 [Filter]
Topic : Bayesian Statistics [Filter]
Topic : Genetics [Filter]
Topic : Graphical Models [Filter]

Activity Percentile: 0.00

Registered: 2011-01-07 17:53

19. 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 [Filter]
Topic : Bayesian Statistics [Filter]
Topic : Bioinformatics : Statistics [Filter]
Topic : Genetics [Filter]

Activity Percentile: 0.00

Registered: 2011-10-11 08:51

27 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
<1>