getExpInteractionsInRefseq: identified significant interaction regions for RefSeq genes

In r3Cseq: Analysis of Chromosome Conformation Capture and Next-generation Sequencing (3C-seq)

Description

Get a list of genes that contain strong interaction signals in the experiment

Usage

getExpInteractionsInRefseq(obj,cutoff.qvalue=0.05,expanded_upstream=50e3,expanded_downstream=10e3)

Arguments

obj	obj is r3Cseq or r3CseqInBatch object
cutoff.qvalue	Numeric. The cutoff q-value (default=0.05)
expanded_upstream	Numeric. The expanded distance from the upstream of a gene start (default=50e3)
expanded_downstream	Numeric. The expanded distance from the downstream of a gene end (default =10e3)

Value

List of identified genes, which contain strong interaction signals

Author(s)

S. Thongjuea

See Also

getContrInteractionsInRefseq

Examples

 # See the vignette

r3Cseq documentation built on Nov. 8, 2020, 6:26 p.m.