read_mrna: Read mrna expression object from file

Description Usage Arguments Details Value Author(s) Examples

Description

Uses fst to read mrna expression object and associated annotations.

Usage

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read_mrna(chr_id = NULL, start_val = NULL, end_val = NULL, datapath,
  local = TRUE, qtl = FALSE, mrnadir = "RNAseq")

Arguments

chr_id

vector of chromosome identifiers

start_val, end_val

start and end values in Mbp

datapath

name of folder with Derived Data

local

read only mRNA values local to region if TRUE; otherwise include distal mRNA values that map to region

qtl

read only mRNA values with QTL peak in region if TRUE

mrnadir

name of directory with mRNA data

Details

Reads 'expr', 'peaks' and 'annot' information on mRNA and combines into a list. The 'expr' and 'peaks' elements are stored in 'fst' database, while 'peaks' is an 'RDS' database.

Value

list with expr = matrix of expression mRNA values in region and annot = data frame of annotations for mRNA.

Author(s)

Brian S Yandell, [email protected]

Examples

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## Not run: read_probs(chr, datapath)

byandell/qtl2pattern documentation built on May 13, 2019, 9:51 a.m.