ranges2genes: ranges2genes
In CAGEr: Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
Description
Usage
Arguments
Details
Value
Author(s)
See Also
Examples
Description
Assign gene symbol(s) to Genomic Ranges.
Usage
1
ranges2genes(ranges, genes)
Arguments
ranges
Genomics Ranges object, for example extracted from a
RangedSummarizedExperiment object with the rowRanges
command.
genes
A GRanges object containing gene_name metadata.
Details
This private (non-exported) function is used to assign gene symbols
to genomic ranges. It is run by annotateCTSS, which has to
be run before CTSStoGenes.
Value
A Rle character vector of same length as the GRanges object,
indicating one gene symbol or a semicolon-separated list of gene symbols for each
range.
Author(s)
Charles Plessy
See Also
CTSScoordinatesGR, exampleZv9_annot
Other CAGEr annotation functions: annotateCTSS,
plotAnnot, ranges2annot,
ranges2names
Other CAGEr gene expression analysis functions: CTSStoGenes,
GeneExpDESeq2
Examples
1
CAGEr documentation built on Jan. 17, 2021, 2 a.m.
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Description Usage Arguments Details Value Author(s) See Also Examples
Description
Assign gene symbol(s) to Genomic Ranges.
Usage
1 | ranges2genes(ranges, genes)
|
Arguments
ranges |
Genomics Ranges object, for example extracted from a
RangedSummarizedExperiment object with the |
genes |
A |
Details
This private (non-exported) function is used to assign gene symbols
to genomic ranges. It is run by annotateCTSS, which has to
be run before CTSStoGenes.
Value
A Rle character vector of same length as the GRanges object,
indicating one gene symbol or a semicolon-separated list of gene symbols for each
range.
Author(s)
Charles Plessy
See Also
CTSScoordinatesGR, exampleZv9_annot
Other CAGEr annotation functions: annotateCTSS,
plotAnnot, ranges2annot,
ranges2names
Other CAGEr gene expression analysis functions: CTSStoGenes,
GeneExpDESeq2
Examples
1 |
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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