select_annotations: Annotations selection helper.
In ArnaudDroitLab/ef.utils: Eric Utilities
Description
Usage
Arguments
Value
View source: R/AnnotationHelper.R
Description
Given a genome build identifier, creates a list of annotation databases
which can be passed to the annotation functions.
Usage
1
select_annotations(genome.build)
Arguments
genome.build
The genome build to use for annotation.
Value
A list with the following elements:
- TxDb
A TxDb of class AnnotationDBI providing informations about the genes
of the selected build.
- OrgDb
An OrgDb object for the selected species.
- OrgDbStr
A character string representing the name of the OrgDb object.
- BSGenome
A BSGenome object to retrieve DNA sequences.
- KEGG
A cache of KEGG pathways, as returned by kegg.gsets from the gage library.
- PWMBG
A PWMLogn background for motif enrichment of promoter regions.
ArnaudDroitLab/ef.utils documentation built on Aug. 13, 2019, 9:09 p.m.
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Description Usage Arguments Value
View source: R/AnnotationHelper.R
Description
Given a genome build identifier, creates a list of annotation databases which can be passed to the annotation functions.
Usage
1 | select_annotations(genome.build)
|
Arguments
genome.build |
The genome build to use for annotation. |
Value
A list with the following elements:
- TxDb
A TxDb of class AnnotationDBI providing informations about the genes of the selected build.
- OrgDb
An OrgDb object for the selected species.
- OrgDbStr
A character string representing the name of the OrgDb object.
- BSGenome
A BSGenome object to retrieve DNA sequences.
- KEGG
A cache of KEGG pathways, as returned by
kegg.gsetsfrom the gage library.- PWMBG
A PWMLogn background for motif enrichment of promoter regions.
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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