Software Map
Project Tree
59 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
<1>
0. 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.
|
- 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]
|
Activity Percentile: 0.00
Registered: 2008-07-24 04:32 |
1. 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.
|
- 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]
|
Activity Percentile: 0.00
Registered: 2014-02-03 16:37 |
2. Evolution simulation and classification - After measuring gene frequencies of modern populations that have a common ancestor, we estimate ancestral allele frequency and selection state for each gene. A bayesian model is used and verified using the included simulator.
|
- Development Status : 4 - Beta [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : English [Filter]
- Natural Language : French [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : Fortran [Filter]
- Programming Language : R [Filter]
- Topic : Bayesian Statistics : Specific Model Fitting [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Genetics : Population Genetics [Filter]
|
Activity Percentile: 0.00
Registered: 2009-07-30 17:27 |
3. GWASBinTests - Bin-based analysis of genome-wide association studies
Given an a priori partitioning of the genome into regions termed bins, GWASBinTests can compute
p-values (and FDRs) of several association tests.
|
- Development Status : 4 - Beta [Filter]
- 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]
- Natural Language : French [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Medical Science [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Biostatistics & Medical Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2011-10-07 17:59 |
4. Tools for analysis of epigenomic data - Useful functions for quality assessment, visualization, summarization and statistical analysis of epigenomics experiments.
|
- Development Status : 4 - Beta [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU Lesser General Public License (LGPL) [Filter]
- Natural Language : English [Filter]
- Operating System : OS Independent [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Bioinformatics : Visualization [Filter]
|
Activity Percentile: 0.00
Registered: 2010-03-10 09:59 |
5. WaveSeqR - Public repository of R-package WaveSeqR which implements the ChIP-Seq analysis algorithm WaveSeq DOI: 10.1371/journal.pone.0045486.
|
- 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]
|
Activity Percentile: 0.00
Registered: 2013-11-21 21:46 |
6. Layered and chained mixture models - Layered and chained mixture models for various univariate and multivariate distributions.
|
- 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]
|
Activity Percentile: 0.00
Registered: 2011-05-10 07:45 |
7. survGenesInterim - Simulation of survival studies based on simulated gene expression level and patient data. Includes functions to generate such data. Resulting error and power rate can be visualized. Can be used for sample size or power estimation when planning a study.
|
- 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]
- Operating System : OS Independent [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Medical Science [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Multivariate Statistics : Supervised Classification and Discriminant Analysis [Filter]
|
Activity Percentile: 0.00
Registered: 2011-04-19 11:00 |
8. Bayesian Biclustering - This package uses a Bayesian spike-and-slab model to construct bidendrograms using log posterior as the natural distance defined by the model and calculates importance using log Bayes factor.
|
- 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 : Microsoft : Windows : Windows Vista [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Cluster Analysis : Hierarchical Clustering [Filter]
- Topic : Cluster Analysis : Model-based Clustering [Filter]
|
Activity Percentile: 0.00
Registered: 2010-04-01 17:54 |
9. 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.
|
- 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]
|
Activity Percentile: 0.00
Registered: 2012-07-03 03:50 |
10. NewmanOmics - Develop and implement extensions to the Newman studentized range statistic that can be applied to transcriptomic data
|
|
Activity Percentile: 0.00
Registered: 2017-02-15 20:58 |
11. 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 |
12. 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.
|
- 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]
|
Activity Percentile: 0.00
Registered: 2014-02-03 16:15 |
13. GeneticMediation - GeneticMediation provides methods for conducting causal mediation analysis on data from the ROSMAP study. It also provides methods for cleaning, matching, and preparing the data for analysis.
|
- 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]
- Operating System : MacOS [Filter]
- Operating System : Microsoft : Windows [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Genetics : Linkage, LD and Haplotype Mapping [Filter]
- Topic : Genetics : Population Genetics [Filter]
|
Activity Percentile: 0.00
Registered: 2020-04-25 19:28 |
14. Customized Gene Set Enrichment Analysis - Customized Gene Set Enrichment Analysis, including GO/KEGG.
|
- Development Status : 3 - Alpha [Filter]
- Environment : Win32 (MS Windows) [Filter]
- License : OSI Approved : GNU Lesser General Public License (LGPL) [Filter]
- Natural Language : English [Filter]
- Operating System : Microsoft : Windows : Windows NT/2000/XP [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2009-07-07 03:54 |
15. SPRINT: Simple Parallel R INTerface - SPRINT is a Simple Parallel R INTerface to High Performance Computing (HPC) that enables biologists to run statistical analysis scripts using R in parallel on HPC clusters. It consists of an HPC harness and a library of parallelized R functions.
|
- 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 : POSIX : Linux [Filter]
- Programming Language : C/C\+\+ [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : High Performance Computing : Parallel Computing [Filter]
|
Activity Percentile: 0.00
Registered: 2009-11-20 16:56 |
16. 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.
|
- 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]
|
Activity Percentile: 0.00
Registered: 2011-06-10 12:24 |
17. Quantitative Fitness Analysis - QFA is an experimental and computational methodology for estimation of the fitnesses of arrayed microbial cultures growing on solid agar. Methods for estimating fitnesses, fitness variability and genetic interaction strengths are included.
|
- 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 : OS Independent [Filter]
- Programming Language : R [Filter]
- Topic : Bayesian Statistics : General Model Fitting [Filter]
- Topic : Bioinformatics : Mathematics [Filter]
- Topic : Bioinformatics : Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2010-09-06 17:05 |
18. HaarSeg [MOVED TO GITHUB] - This repository and its package has been moved to <https://github.com/HenrikBengtsson/HaarSeg>
|
- 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]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Biostatistics & Medical Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2009-06-05 00:29 |
19. smoothtest - This package implements a whole series of smooth tests that serve as goodness of fit tests for univariate data against a whole range of distributions. The tests can be performed both parametric and data driven.
|
- 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 : OS Independent [Filter]
- Programming Language : R [Filter]
- Topic : Bioinformatics : Statistics [Filter]
- Topic : Numerical Analysis : Prob\. Methods, Simulation and Stochastic Differential Equations [Filter]
- Topic : Other/Nonlisted Topic [Filter]
|
Activity Percentile: 0.00
Registered: 2011-11-29 13:02 |
59 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
<1>
