splitCSQAnnotation: splitCSQAnnotation

Description Usage Arguments Value Examples

Description

Helper function to split CSQ annotation in Exac's INFO field

Usage

1
splitCSQAnnotation(csqString)

Arguments

csqString

Raw CSQ string as read from INFO field

Value

Data frame with each column being a field on CSQ. If annotation has multiple values (e.g. due to multi-allelic), each allele is a separate row

Examples

1
csqAnnot<- splitCSQAnnotation('C|ENSG00000223972|ENST00000456328|Transcript|non_coding_transcript_exon_variant&non_coding_transcript_variant|620||||||1||1|DDX11L1|HGNC|37102|processed_transcript|YES||||||||3/3|||ENST00000456328.2:n.620G>C|||||||||||||||||||,C|ENSG00000223972|ENST00000450305|Transcript|splice_region_variant&non_coding_transcript_exon_variant&non_coding_transcript_variant|412||||||1||1|DDX11L1|HGNC|37102|transcribed_unprocessed_pseudogene|||||||||5/6|||ENST00000450305.2:n.412G>C|||||||||||||||||||')

gdelangel/genomicRTools documentation built on May 16, 2019, 11:14 p.m.