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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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16 projects in result set.

0. 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.

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Registered: 2010-01-08 16:59

1. 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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Registered: 2011-09-14 03:27

2. 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.

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Registered: 2011-03-23 10:20

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

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Registered: 2010-03-05 10:51

4. 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'.

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Registered: 2011-11-10 03:57

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

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Registered: 2009-06-19 09:14

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.

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Registered: 2011-01-07 17:53

7. 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.

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Registered: 2011-10-11 08:51

8. LazyMLVA - This project automates assignment of MLVA (Multiple locus VNTR (Variable-Number-of-Tandem-Repeats) Analysis) types from files straight out of the sequencer.

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Registered: 2010-01-08 10:31

9. 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) (Now Filtering) Natural Language : English (Now Filtering) Operating System : POSIX : Linux [Filter] Programming Language : R (Now Filtering) Topic : Bioinformatics [Filter] Topic : Genetics [Filter]	Activity Percentile: 0.00 Registered: 2011-08-17 20:46

10. 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.

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Registered: 2013-04-11 08:27

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).

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Registered: 2013-07-07 18:26

12. 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.

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Registered: 2011-08-19 15:59

13. cgen - Parallel Genomic Prediction and GWAS in R using Eigen and Rcpp

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Registered: 2013-05-29 18:34

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

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Registered: 2016-04-21 23:06

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

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Registered: 2008-07-28 09:03