recoup_test_data: Reference and genomic sample regions for recoup testing

In recoup: An R package for the creation of complex genomic profile plots

Description

The testing data package containes a small gene set, a design data frame, some genomic regions and an input object for testing of recoup with ChIP-Seq and RNA-Seq data. Specifically:

• test.input: A small data set which contains 10000 reads from H4K20me1 ChIP-Seq data from WT adult mice and Set8 (Pr-Set7) KO mice. The tissue is liver.

• test.genome: A small gene set (100 genes) and their coordinates from mouse mm9 chromosome 12.

• test.design: A data frame containing the 100 above genes categorized according to expression and strand.

• test.exons: A GRangesList containing the exons of the 100 above genes for use with recoup RNA-Seq mode.

Format

data.frame and list objects whose format is accepted by recoup.

Author(s)

Panagiotis Moulos

Source

Personal communication with the Talianids lab at BSRC 'Alexander Fleming'. Unpublished data.

recoup documentation built on Nov. 8, 2020, 6:47 p.m.