SetXseqPrior: Set model paramerter priors

In xseq: Assessing Functional Impact on Gene Expression of Mutations in Cancer

Description

Set model paramerter priors

Usage

SetXseqPrior(mut, expr.dis, net, regulation.direction = TRUE, cis = TRUE,
  mut.type = "loss", ...)

Arguments

mut	A data.frame of mutations. The data.frame should have three columns of characters: sample, hgnc_symbol, and variant_type. The variant_type column cat be either "HOMD", "HLAMP", "MISSENSE", "NONSENSE", "FRAMESHIFT", "INFRAME", "SPLICE", "NONSTOP", "STARTGAINED", "SYNONYMOUS", "OTHER", "FUSION", "COMPLEX".
expr.dis	A list, the outputs from calling GetExpressionDistribution
net	A list of gene interactions
regulation.direction	Logical, whether considering the directionality , i.e., up-regulation or down-regulatin of genes, only used when cis=FALSE.
cis	Logical, cis analysis or trans analysis
mut.type	Character, only used when cis = TRUE, and can be either loss, gain or both
...	Reserved for extension

xseq documentation built on May 1, 2019, 9:47 p.m.