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GenomicTools (version 0.2.9.7)

Collection of Tools for Genomic Data Analysis

Description

A loose collection of tools for the analysis of expression and genotype data, currently with the main focus on (e)QTL and MDR analysis.

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Version

Install

install.packages('GenomicTools')

Monthly Downloads

91

Version

0.2.9.7

License

GPL (>= 2)

Maintainer

Daniel Fischer

Last Published

March 9th, 2020

Functions in GenomicTools (0.2.9.7)

getRSLocation

Get the location of an SNP.
phenoData

Simulated Phenotype Data
mdrExample

Example Data for MDR
print.mdr

Print an mdr Object
mdr

Perform a MDR.
getKEGGPathway

Get a list of genes in a specific KEGG pathway.
recodeData

Recode a Genotype Data Matrix.
mdrEnsemble

Ensemble Classification Using an Existing MDR Object
plot.eqtl

Plot an eqtl Object
seqlength

Get the sequence length of a fa-object.
gtfToBed

Extract the Chromosomal Information Required in bed Format from an imported gtf table.
summary.eqtl

Summarize an eqtl Object
print.eqtl

Print an eqtl Object
plot.mdr

Plot an MDR Object
plot.qtlRes

Plot an qtlRes Object
getKEGGPathwayImage

Get a visualization of a specific KEGG pathway.
getKEGGPathwayOverview

Get a list of pathways in a specific organism.
QTL

Perform a QTL Analysis
GenomicTools-package

Loose Collection of Expression and Genotype Analysis Tools, including (e)QTL and MDR.
geneEXP

Simulated Expression Data
getKEGGOrganisms

Get a list of organisms in the KEGG database
annotTrack

Example Annotation Track
genotData

Simulated Genotype Data
eQTL

Perform an eQTL Analysis