recoup_test_data: Reference and genomic sample regions for recoup testing

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

Reference and genomic sample regions for recoup testing

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 Unpublished data.

pmoulos/recoup documentation built on May 20, 2024, 2:22 a.m.