tss.mm9: tss.mm9 TSS locations

In sartorlab/chipenrich.data: Companion package to chipenrich

tss.mm9 TSS locations

Description

A GRanges with all the TSSs for mm9. Primarily used in the assign_peaks() function to report distance of a peak to the nearest TSS. Also used to build the QC plot with distribution of peaks to TSSs.

Usage

tss.mm9

Format

A GRanges object with the following mcols:

gene_id

The Entrez ID for the TSS

symbol

The gene symbol for the TSS

Source

R packages: TxDb.Mmusculus.UCSC.mm9.knownGene_3.2.2 and org.Mm.eg.db_3.5.0. GENCODE resources: ftp://ftp.sanger.ac.uk/pub/gencode/Gencode_mouse/release_M9/gencode.vM9.annotation.gff3.gz and ftp://ftp.sanger.ac.uk/pub/gencode/Gencode_mouse/release_M9/gencode.vM9.metadata.EntrezGene.gz

sartorlab/chipenrich.data documentation built on Oct. 4, 2023, 5:21 p.m.