locusdef.dm3.1kb_outside_upstream: locusdef.dm3.1kb_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 1kb 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, dm3.
- organism
A character indicating the organism name. In this case, Drosophila melanogaster.
Details
For the dm3 genome, original gene IDs are from ENSEMBL and so an additional step of converting to Entrez IDs is done.
Built on Fri Apr 13 09:53:05 2018.
Source
R packages: TxDb.Dmelanogaster.UCSC.dm3.ensGene_3.2.2 and org.Dm.eg.db_3.5.0.
wangk4/chipenrich.data documentation built on June 19, 2020, 12:18 a.m.
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Description Usage Format Details Source
Description
A LocusDefinition where a gene locus is defined as the region beyond 1kb 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, dm3.- organism
A
characterindicating the organism name. In this case, Drosophila melanogaster.
Details
For the dm3 genome, original gene IDs are from ENSEMBL and so an additional step of converting to Entrez IDs is done.
Built on Fri Apr 13 09:53:05 2018.
Source
R packages: TxDb.Dmelanogaster.UCSC.dm3.ensGene_3.2.2 and org.Dm.eg.db_3.5.0.
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.
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