Jul 152014
 

ArrayFun 1.0

:: DESCRIPTION

ArrayFun is a package to analyze 2-color expression arrays (cDNA or oligonucleotide) starting with raw (.gpr) data.  This packages makes heavy use of the ‘marray’ and ‘limma’ packages from Bioconductor.  The FHm15k and FHm22k data sets are provide array layout information for use with these platforms so you won’t need to load GAL files every time you analyze a new set of data.

::DEVELOPER

Fero Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 ArrayFun

:: MORE INFORMATION

Jul 152014
 
MSA 4.05 - Microsatellite Analyzer

MSA 4.05 :: DESCRIPTION The MSA software tool was designed to handle large microsatellite data sets. To avoid error prone reformatting, MSA uses a simple input format, very close to a simple spreadsheet. DEVELOPER Institute of Population Genetics, University of Veterinary Medicine Vienna :: SCREENSHOTS N/A :: REQUIREMENTS Linux / MacOsX / Windows :: DOWNLOAD  MSA [...]

Jul 152014
 
DistMap 1.0 - A Toolkit for Distributed Short Read Mapping on a Hadoop Cluster

DistMap 1.0 :: DESCRIPTION DistMap is a user-friendly pipeline designed to map short reads in a MapReduce framework on a local Hadoop cluster. DEVELOPER Institute of Population Genetics, University of Veterinary Medicine Vienna :: SCREENSHOTS N/A :: REQUIREMENTS Linux / MacOsX Java Perl Mapper executable  MergeSamFiles.jar and SortSam.jar from PICARD (http://picard.sourceforge.net). A working Hadoop cluster. :: DOWNLOAD  DistMap :: [...]

Jul 152014
 
Allim 1.1 - Measuring Allele Specific Gene Expression

Allim 1.1 :: DESCRIPTION Allim (Allelic imbalance meter) offers an integrated and user-friendly solution for measuring allele specific gene expression (ASE) within species. DEVELOPER Institute of Population Genetics, University of Veterinary Medicine Vienna :: SCREENSHOTS N/A :: REQUIREMENTS Linux / MacOsX Python BioPython Java PICARD R SAMTOOLS BedTools :: DOWNLOAD  Allim :: MORE INFORMATION Citation: Pandey [...]

Jul 152014
 
gowinda 1.12 - Gene Ontology Term Enrichment for Genome Wide Association Studies

gowinda 1.12 :: DESCRIPTION Gowinda is a multi-threaded Java application that allows an unbiased analysis of gene set enrichment for Genome Wide Association Studies. DEVELOPER Institute of Population Genetics, University of Veterinary Medicine Vienna :: SCREENSHOTS N/A :: REQUIREMENTS Linux / MacOsX Java Python :: DOWNLOAD  gowinda :: MORE INFORMATION Citation: Bioinformatics. 2012 Aug 1;28(15):2084-5. doi: [...]

Jul 152014
 
PoPoolation 1.2.2 / PoPoolation2 1.201 / PoPoolation TE 1.02 - Analyse Pooled Next Generation Sequencing data

popoolation 1.2.2 / PoPoolation2 1.201 / PoPoolation TE 1.02 :: DESCRIPTION PoPoolation is a collection of tools to facilitate population genetic studies of next generation sequencing data from pooled individuals PoPoolation2 allows to compare allele frequencies for SNPs between two or more populations and to identify significant differences. PoPoolation TE is a quick and simple pipeline for [...]

Jul 152014
 
ms2ms.pl - Convert the Output of Hudson's Makesample software into Microsatellite data

ms2ms.pl :: DESCRIPTION ms2ms.pl converts the output of Hudson’s makesample software into microsatellite data. The output could be directly analyzed by MSA. DEVELOPER Institute of Population Genetics, University of Veterinary Medicine Vienna :: SCREENSHOTS N/A :: REQUIREMENTS Linux / MacOsX / Windows Perl :: DOWNLOAD  ms2ms.pl :: MORE INFORMATION Citation SREENIVASA R. PIDUGU andCHRISTIAN SCHLÖTTERER ms2ms.pl: [...]

Jul 152014
 
ilastik 1.1.0 - the Interactive Learning and Segmentation Toolkit

ilastik 1.1.0 :: DESCRIPTION ilastik is a simple, user-friendly tool for image classification and segmentation in up to three spatial and one spectral dimension. Using it requires no experience in image processing. ::DEVELOPER ilastik team :: SCREENSHOTS :: REQUIREMENTS Windows / Linux / MacOsX :: DOWNLOAD  ilastik :: MORE INFORMATION Citation ilastik: Interactive Learning and [...]

Jul 152014
 
CecogAnalyzer 1.5.0 - Time-resolved Analysis of Single Cells

CecogAnalyzer 1.5.0 :: DESCRIPTION CecogAnalyzer is a cross-platform standalone graphical user interface for the time-resolved analysis of single cells. ::DEVELOPER CecogAnalyzer team :: SCREENSHOTS :: REQUIREMENTS Windows / Linux / MacOsX :: DOWNLOAD   CecogAnalyzer :: MORE INFORMATION

Jul 142014
 
Mendel 14.2 - Likelihood-based Statistical Analysis

Mendel 14.2 :: DESCRIPTION Mendel performs likelihood-based statistical analysis to solve a variety of genetic problems. Implementations are included for all common, and several novel, statistical genetic tests. Data sets can consist of qualitative or quantitative traits, pedigree or population samples, limited loci or dense SNPs. Where appropriate, the analysis will use either the Elston-Stewart [...]