Software Map
Project Tree
Now limiting view to projects in the following categories:
Topic :: Bioinformatics :: Statistics [Remove This Filter]
Programming Language :: R [Remove This Filter]
56 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
<1>
0. 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Biostatistics & Medical Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2013-11-21 21:46 |
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 (Now Filtering)
- Topic : Genetics [Filter]
|
Activity Percentile: 0.00
Registered: 2013-12-19 15:12 |
2. 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.
|
- 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Genetics : Population Genetics [Filter]
|
Registered: 2012-06-13 23:35 |
3. 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.
|
- 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Cluster Analysis [Filter]
- Topic : Multivariate Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2013-08-29 17:48 |
4. calibayesR - The package also provides a web-serivce interface to the CaliBayes system. See http://www.calibayes.ncl.ac.uk for more details.
|
- 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 (Now Filtering)
- Topic : Bayesian Statistics : Specific Model Fitting [Filter]
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : High Performance Computing : Grid Computing [Filter]
|
Activity Percentile: 0.00
Registered: 2009-11-30 09:36 |
5. Quasi-likelihood parameter estimation - The package provides methods for parameter estimation for statistical models that can be simulated. We follow a quasi-likelihood approach to estimate the unknown parameter by the root of the so-called quasi-score estimating function.
|
- Development Status : 4 - Beta [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Natural Language : German [Filter]
- Operating System : Microsoft : Windows [Filter]
- Operating System : POSIX : Linux [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Multivariate Statistics [Filter]
- Topic : Spatial Data & Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2017-08-30 21:22 |
6. 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Multivariate Statistics [Filter]
- Topic : Other/Nonlisted Topic [Filter]
|
Activity Percentile: 0.00
Registered: 2014-02-03 16:37 |
7. 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Machine Learning [Filter]
- Topic : Multivariate Statistics : Supervised Classification and Discriminant Analysis [Filter]
|
Activity Percentile: 0.00
Registered: 2014-02-03 16:15 |
8. Gene set analysis with asymptotic pvalue - mGSZ is a gene set analysis method based on GSZ statistics (Törönen et al.,2009) and asymptotic p-value. mGSZ is different from the standard GSZ method in that it assigns asymptotic p-values to the gene set scores instead of empirical p-values.
|
- Development Status : 5 - Production/Stable [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
|
Activity Percentile: 0.00
Registered: 2014-02-14 10:16 |
9. 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.
|
- 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Machine Learning : Regularized and Shrinkage Methods [Filter]
|
Registered: 2010-05-14 17:13 |
10. waveTiling - Perform transcriptome analysis from tiling array data by a wavelet-based functional model.
|
- 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
|
Activity Percentile: 0.00
Registered: 2011-12-05 20:42 |
11. The FEST package - Identification of Family Relations using linked markers.
|
- Intended Audience : Developers [Filter]
- Intended Audience : End Users/Desktop [Filter]
- License : OSI Approved : GNU General Public License (GPL) [Filter]
- Programming Language : Perl [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Genetics : Linkage, LD and Haplotype Mapping [Filter]
|
Activity Percentile: 0.00
Registered: 2010-04-13 13:05 |
12. 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Graphical Models [Filter]
- Topic : Time Series [Filter]
|
Activity Percentile: 0.00
Registered: 2011-06-10 12:24 |
13. modEvA - modEvA is an R package for species distribution model evaluation and analysis.
|
- 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Spatial Data & Statistics : Ecological Analysis [Filter]
|
Activity Percentile: 0.00
Registered: 2014-04-04 11:51 |
14. bclust - Bayesian clustering with variable selection is a fully automatic clustering method, designed for low-sample-size-high-dimensional situations. This might be regarded as a high-dimensional variant of the mclust package.
|
- 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Cluster Analysis : Hierarchical Clustering [Filter]
- Topic : Cluster Analysis : Model-based Clustering [Filter]
|
Activity Percentile: 0.00
Registered: 2009-02-18 10:01 |
15. qPCR - qPCR is a method for detecting and quantifying mRNA from a given sample. This project attempts to solve 3 main problems in analysis of qPCR data
Unification of different output formats
Quality Control to find problematic reactions
Normalisation of data
|
- 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]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Bioinformatics : Visualization [Filter]
|
Activity Percentile: 0.00
Registered: 2008-10-09 17:22 |
16. Peirce - Illustrate Peirces criterion for rejection of outliers from a normal distribution.
|
- 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
|
Activity Percentile: 0.00
Registered: 2012-09-07 07:56 |
17. 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 (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Cluster Analysis : Hierarchical Clustering [Filter]
- Topic : Cluster Analysis : Model-based Clustering [Filter]
|
Activity Percentile: 0.00
Registered: 2010-04-01 17:54 |
18. 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 (Now Filtering)
- Topic : Genetics [Filter]
|
Activity Percentile: 0.00
Registered: 2011-10-11 08:51 |
19. pi0 estimators - Estimation of the proportion of true null hypotheses (pi0) from a large number of hypothesis tests; Non/parametric recovery of noncentrality parameter distribution; False discovary rates (FDR) computation.
|
- Development Status : 3 - Alpha [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 : OS Independent [Filter]
- Programming Language : C/C\+\+ [Filter]
- Programming Language : R (Now Filtering)
- Topic : Bioinformatics : Statistics (Now Filtering)
- Topic : Genetics : Multiple Testing [Filter]
- Topic : Multivariate Statistics [Filter]
|
Activity Percentile: 0.00
Registered: 2010-03-21 02:01 |
56 projects in result set. Displaying 20 per page. Projects sorted by activity ranking.
<1>
