locusdef.mm10.5kb_outside_upstream: locusdef.mm10.5kb_outside_upstream locus definition
In wangk4/chipenrich.data: Companion package to chipenrich
Description
Usage
Format
Details
Source
Description
A LocusDefinition where a gene locus is defined as the region beyond 5kb upstream of the TSS and bounded by the midpoint between the TSS and the next upstream TSS.
Usage
1
Format
A LocusDefinition object with the following slots:
- granges
A GRanges of the locus definitions with mcols for Entrez Gene ID gene_id and gene symbol symbol
- dframe
A data.frame of the locus definitions with columns for chr, start, end, gene_id, and symbol
- genome.build
A character indicating the genome build. In this case, mm10.
- organism
A character indicating the organism name. In this case, Mus musculus.
Details
Built on Fri Apr 13 09:51:39 2018.
Source
R packages: TxDb.Mmusculus.UCSC.mm10.knownGene_3.4.0 and org.Mm.eg.db_3.5.0. GENCODE resources: ftp://ftp.sanger.ac.uk/pub/gencode/Gencode_mouse/release_M12/gencode.vM12.annotation.gff3.gz and ftp://ftp.sanger.ac.uk/pub/gencode/Gencode_mouse/release_M12/gencode.vM12.metadata.EntrezGene.gz
wangk4/chipenrich.data documentation built on June 19, 2020, 12:18 a.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description Usage Format Details Source
Description
A LocusDefinition where a gene locus is defined as the region beyond 5kb upstream of the TSS and bounded by the midpoint between the TSS and the next upstream TSS.
Usage
1 |
Format
A LocusDefinition object with the following slots:
- granges
A
GRangesof the locus definitions withmcolsfor Entrez Gene IDgene_idand gene symbolsymbol- dframe
A
data.frameof the locus definitions with columns forchr,start,end,gene_id, andsymbol- genome.build
A
characterindicating the genome build. In this case, mm10.- organism
A
characterindicating the organism name. In this case, Mus musculus.
Details
Built on Fri Apr 13 09:51:39 2018.
Source
R packages: TxDb.Mmusculus.UCSC.mm10.knownGene_3.4.0 and org.Mm.eg.db_3.5.0. GENCODE resources: ftp://ftp.sanger.ac.uk/pub/gencode/Gencode_mouse/release_M12/gencode.vM12.annotation.gff3.gz and ftp://ftp.sanger.ac.uk/pub/gencode/Gencode_mouse/release_M12/gencode.vM12.metadata.EntrezGene.gz
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.