Repository snpfreq
Name: snpfreq
Owner: devteam
Synopsis: snpFreq significant SNPs in case-control data
This tool performs a basic analysis of bi-allelic SNPs in case-control
data, using the R statistical environment and Fisher''s exact test to identify SNPs
with a significant difference in the allele frequencies between the two groups.  R''s
"qvalue" package is used to correct for multiple testing.
Development repository: https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/hgv/snpfreq
Link to this repository: https://toolshed.g2.bx.psu.edu/view/devteam/snpfreq/5c3ac057608b
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/devteam/snpfreq
Type: unrestricted
Revision: 1:5c3ac057608b
This revision can be installed: True
Times cloned / installed: 2712
Dependencies of this repository

Repository dependencies - installation of these additional repositories is required
Repository package_r_2_11_0 revision 5824d2b3bc8b owned by devteam (prior install required)
Repository package_r_2_11_0 revision 5824d2b3bc8b owned by devteam

Tool dependencies - repository tools require handling of these dependencies
Name Version Type
R 2.11.0 package
bioc_qvalue 1.34.0 package

Contents of this repository

Valid tools - click the name to preview the tool and use the pop-up menu to inspect all metadata
Name Description Version Minimum Galaxy Version
significant SNPs in case-control data 1.0.1 any

Categories
Variant Analysis - Tools for single nucleotide polymorphism data such as WGA