classifyDE: Classify DE result

In genialis/shRNAde: Functions needed to support the shRNA pipeline in rewolwe-bio

Description

Given DE data for various contrasts (ctr), each of the contrasts will be classified as lethal, beneficial or neutral from l2fc and p-value based on parameters passed in from param (l_thr, p_thr). Based on a group of (overall) contrasts (overall_ctr) number of beneficial, lethal or neutral shRNAs in a group of contrasts is counted and classified as lethal, beneficial and neutral using overall_thr parameter.

Usage

classifyDE(de, param, ctr, overall_ctr)

Arguments

de	An object of ("trimmed") results in the form as returned by scrapeDEresults.
param	A data.frame of parameters used during classification.
ctr	A data.frame of contrasts used for constructing DE.
overall_ctr	A data.frame of overall contrasts

Value

A data.frame with classified results.

genialis/shRNAde documentation built on May 3, 2019, 7:39 p.m.