getCodonOneVariant: Get the codon sequence of transcripts in transcriptIdColumn...
In utr.annotation: Annotate Variants in the Untranslated Regions
Description
Usage
Arguments
Value
Description
getCodonOneVariant Get the codon sequence of transcripts in transcriptIdColumn for one variant.
Usage
1
getCodonOneVariant(variant, seqTable, transcriptIdColumn, codonRegion)
Arguments
variant
variant info
seqTable
cooresponding sequence table from Ensembl DB (either 5' UTR sequence or 3' UTR sequence). Have two columns: ensembl_transcript_id and seq
transcriptIdColumn
the name of the transcript id column for the codon region
codonRegion
"startCodon" or "stopCodon"
Value
A string concatenated codon sequences (NA if the transcript id in that row is NA) for one variant.
utr.annotation documentation built on Aug. 23, 2021, 9:06 a.m.
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.
Description Usage Arguments Value
Description
getCodonOneVariant Get the codon sequence of transcripts in transcriptIdColumn for one variant.
Usage
1 | getCodonOneVariant(variant, seqTable, transcriptIdColumn, codonRegion)
|
Arguments
variant |
variant info |
seqTable |
cooresponding sequence table from Ensembl DB (either 5' UTR sequence or 3' UTR sequence). Have two columns: ensembl_transcript_id and seq |
transcriptIdColumn |
the name of the transcript id column for the codon region |
codonRegion |
"startCodon" or "stopCodon" |
Value
A string concatenated codon sequences (NA if the transcript id in that row is NA) for one variant.
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.