getTSS: getTSS to fetch GENCODE gene annotation (transcripts level)...
In gevaertlab/EpiMix: EpiMix: an integrative tool for the population-level analysis of DNA methylation
getTSS R Documentation
getTSS to fetch GENCODE gene annotation (transcripts level) from Bioconductor package biomaRt
If upstream and downstream are specified in TSS list, promoter regions of GENCODE gene will be generated.
Description
getTSS to fetch GENCODE gene annotation (transcripts level) from Bioconductor package biomaRt
If upstream and downstream are specified in TSS list, promoter regions of GENCODE gene will be generated.
Usage
getTSS(genome = "hg38", TSS = list(upstream = NULL, downstream = NULL))
Arguments
genome
Which genome build will be used: hg38 (default) or hg19.
TSS
A list. Contains upstream and downstream like TSS=list(upstream, downstream).
When upstream and downstream is specified, coordinates of promoter regions with gene annotation will be generated.
Value
GENCODE gene annotation if TSS is not specified. Coordinates of GENCODE gene promoter regions if TSS is specified.
Author(s)
Lijing Yao (maintainer: lijingya@usc.edu)
gevaertlab/EpiMix documentation built on July 20, 2023, 9:28 a.m.
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| getTSS | R Documentation |
getTSS to fetch GENCODE gene annotation (transcripts level) from Bioconductor package biomaRt If upstream and downstream are specified in TSS list, promoter regions of GENCODE gene will be generated.
Description
getTSS to fetch GENCODE gene annotation (transcripts level) from Bioconductor package biomaRt If upstream and downstream are specified in TSS list, promoter regions of GENCODE gene will be generated.
Usage
getTSS(genome = "hg38", TSS = list(upstream = NULL, downstream = NULL))
Arguments
genome |
Which genome build will be used: hg38 (default) or hg19. |
TSS |
A list. Contains upstream and downstream like TSS=list(upstream, downstream). When upstream and downstream is specified, coordinates of promoter regions with gene annotation will be generated. |
Value
GENCODE gene annotation if TSS is not specified. Coordinates of GENCODE gene promoter regions if TSS is specified.
Author(s)
Lijing Yao (maintainer: lijingya@usc.edu)
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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