View source: R/core_functions.R
predict_coding_impact | R Documentation |
Create Coding Impact Meta-prediction Score Data Frame
predict_coding_impact(
annovar_csv_path,
keep_highest_score = TRUE,
keep_single_symbol = TRUE,
na.string = "."
)
annovar_csv_path |
path to 'ANNOVAR' csv output file |
keep_highest_score |
boolean to indicate whether to keep only the maximal
impact score per gene (default = |
keep_single_symbol |
in ANNOVAR outputs, a variant may be annotated as
exonic in multiple genes. This boolean argument controls whether or not to
keep only the first encountered symbol for a variant (default = |
na.string |
string that was used to indicate when a score is not available during annotation with ANNOVAR (default = ".") |
data frame of meta-prediction scores containing 2 columns:
HGNC gene symbol
metapredictor impact score
path2annovar_csv <- system.file("extdata/example.hg19_multianno.csv",
package = "driveR")
metapred_df <- predict_coding_impact(path2annovar_csv)
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