assocTable2: this function creates a table of keys and pvals from a...

In BIMSBbioinfo/reg2gene: Predicting the target genes for regulatory elements

Description

this function creates a table of keys and pvals from a GRangesList which contains GRanges as the output of associateReg2Gene or metaAssociate functions. this is needed to process the interactions that exist in many datasets and merge them into the same table with stats from the statistical tests

Usage

assocTable2(grlist, qval, cutoff.column)

Arguments

grlist
qval	q-value cutoff that will be used to filter elements in the input GRangesList. This argument will only take effect when the GRanges object has a numeric "qval" column. If the input object lacks this column, every association in the object will be treated as a valid association prediction.
cutoff.column	(character,"pval" is defalut). Which statistics to filter:"qval" or "pval"

Author(s)

Altuna Akalin

BIMSBbioinfo/reg2gene documentation built on May 3, 2019, 6:42 p.m.