getQTLTable: Export a summarized table of QTL

Description Usage Arguments Value

View source: R/export_functions.R

Description

Export a summarized table of QTL

Usage

1
2
getQTLTable(SNPset, method = "Gprime", alpha = 0.05, interval = 99,
  export = FALSE, fileName = "QTL.csv")

Arguments

SNPset

Data frame SNP set containing previously filtered SNPs

method

either "Gprime" or "QTLseq". The method for detecting significant regions.

alpha

numeric. The required false discovery rate alpha for use with method = "Gprime"

interval

numeric. For use eith method = "QTLseq" The Takagi based confidence interval requested. This will find the column named "CI_\*\*", where \*\* is the requested interval, i.e. 99.

export

logical. If TRUE will export a csv table.

fileName

either a character string naming a file or a connection open for writing. "" indicates output to the console.

Value

Returns a summarized table of QTL identified. The table contains the following columns:


bmansfeld/QTLseqR documentation built on Jan. 25, 2020, 8:52 p.m.