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GSAQ (version 1.0)

Gene Set Analysis with QTL

Description

Computation of Quantitative Trait Loci hits in the selected gene set. Performing gene set validation with Quantitative Trait Loci information. Performing gene set enrichment analysis with available Quantitative Trait Loci data and computation of statistical significance value from gene set analysis. Obtaining the list of Quantitative Trait Loci hit genes along with their overlapped Quantitative Trait Loci names.

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Version

Install

install.packages('GSAQ')

Monthly Downloads

173

Version

1.0

License

GPL (>= 2)

Maintainer

Samarendra Das

Last Published

September 8th, 2016

Functions in GSAQ (1.0)

qtl_salt

A list of salt responsive Quantitative Trait Loci of rice
rice_salt

Gene expression data of rice under salinity stress
qtlhit

Computation of qtl-hit statistic for the selected gene set
genelist

A list of genes of rice
GeneSelect

Selection of informative geneset
geneqtl

List of the selected genes along with their corresponding overlapped QTL
qtldist

QTL wise distribution of genes in the selected geneset
GSVQ

Gene Set Validation with QTL using Hyper-geometric test without gene sampling model
GSAQ

Gene Set Analysis with Quantitative Trait Loci with gene sampling model
genedist

Chromosomal distribution of the genes in the selected geneset
totqtlhit

Computation of total number of qtl-hits found in the whole gene space