SCANVISannotation: assembles annotation from gtf file into SCANVISreadable...
In nygenome/SCANVIS: SCANVIS - a tool for SCoring, ANnotating and VISualizing splice junctions
Description
Usage
Arguments
Value
Note
Examples
View source: R/SCANVISannotation.R
Description
This function ftps to the supplied gtf url, downloads gtf
to current directory and assembles annotation details into a SCANVISreadable object
Usage
1
SCANVISannotation(ftp.url)
Arguments
ftp.url
Value
a gencode object compatible (and required) for use with most SCANVISfunctions
Note
Web access required. If variants are available and intended for use with SCANVISlinkvar, the gencode reference genome must be the same as that used for the variant calls.
Examples
1
## Not run: gen19=SCANVISannotation('ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_19/')
nygenome/SCANVIS documentation built on July 19, 2019, 4:57 a.m.
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Description Usage Arguments Value Note Examples
View source: R/SCANVISannotation.R
Description
This function ftps to the supplied gtf url, downloads gtf to current directory and assembles annotation details into a SCANVISreadable object
Usage
1 | SCANVISannotation(ftp.url)
|
Arguments
ftp.url |
Value
a gencode object compatible (and required) for use with most SCANVISfunctions
Note
Web access required. If variants are available and intended for use with SCANVISlinkvar, the gencode reference genome must be the same as that used for the variant calls.
Examples
1 | ## Not run: gen19=SCANVISannotation('ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_19/')
|
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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