annotated_bcf_to_oncotable: annotated_bcf_to_oncotable
In mskilab/casereport: casereport: Whole-genome + transcription based report for cancer genomes
annotated_bcf_to_oncotable R Documentation
annotated_bcf_to_oncotable
Description
Collect results from annotated BCF for oncotable
Usage
annotated_bcf_to_oncotable(
annotated_bcf,
filter = "PASS",
keepeff = c("trunc", "cnadel", "cnadup", "complexsv", "splice", "inframe_indel",
"fusion", "missense", "promoter", "regulatory", "mir"),
id = "",
verbose = FALSE
)
Arguments
annotated_bcf
(character) path to file
filter
(character) default PASS
keepeff
(character) variants to keep
id
(character) ID of sample
verbose
(logical) default FALSE
mskilab/casereport documentation built on Oct. 19, 2022, 3 a.m.
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| annotated_bcf_to_oncotable | R Documentation |
annotated_bcf_to_oncotable
Description
Collect results from annotated BCF for oncotable
Usage
annotated_bcf_to_oncotable(
annotated_bcf,
filter = "PASS",
keepeff = c("trunc", "cnadel", "cnadup", "complexsv", "splice", "inframe_indel",
"fusion", "missense", "promoter", "regulatory", "mir"),
id = "",
verbose = FALSE
)
Arguments
annotated_bcf |
(character) path to file |
filter |
(character) default PASS |
keepeff |
(character) variants to keep |
id |
(character) ID of sample |
verbose |
(logical) default FALSE |
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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