add_rsids_to_funseq: Add rs ID to INFO annotation
In santiago1234/phdpopgene: What the Package Does (One Line, Title Case)
Description
Usage
Arguments
Value
Examples
View source: R/parse-vcf-annotation.R
Description
the vcf file with variant annotation sometimes does not
include the rs IDs and returns another id when I extract the info
this new id has the format: chrn:start_RF/ALT for some variants
Usage
1
add_rsids_to_funseq(vcf_genotypes, info_data, chrn)
Arguments
vcf_genotypes
CollapsedVCF, genotypes vcf
info_data
this can be the output of get_CSQ or get_FUNSEQ
chrn
int or chr, chromosome name
Value
A data frame
- varid
Variant ID
- range_id
Id for variant in range chrn:start_RF/ALT
...
Examples
1
2
info_funseq <- get_FUNSEQ(test_anno_vcf)
add_rsids_to_funseq(test_vcf, info_funseq, 22)
santiago1234/phdpopgene documentation built on Dec. 31, 2020, 5:06 a.m.
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Description Usage Arguments Value Examples
View source: R/parse-vcf-annotation.R
Description
the vcf file with variant annotation sometimes does not include the rs IDs and returns another id when I extract the info this new id has the format: chrn:start_RF/ALT for some variants
Usage
1 | add_rsids_to_funseq(vcf_genotypes, info_data, chrn)
|
Arguments
vcf_genotypes |
CollapsedVCF, genotypes vcf |
info_data |
this can be the output of |
chrn |
int or chr, chromosome name |
Value
A data frame
- varid
Variant ID
- range_id
Id for variant in range chrn:start_RF/ALT
...
Examples
1 2 | info_funseq <- get_FUNSEQ(test_anno_vcf)
add_rsids_to_funseq(test_vcf, info_funseq, 22)
|
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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