Description Usage Arguments Details Value
View source: R/featureEnrichment.R
Calculate the enrichment of snv hits in genomic features A 'features' file must be provided with the follwing format: feature length percentage This can be generated using the script 'script/genomic_features.pl' and a genome .gtf file The defualt genome length is set to the mappable regions of the Drosophila melanogastor Dmel6.12 genome (GEM mappability score > .5) (118274340). The full, assembled genome legnth for chroms 2/3/4/X/Y is 137547960
1 2 3 | featureEnrichment(..., snv_data = NULL,
features = "data/genomic_features.txt", genome_length = 118274340,
write = FALSE)
|
features |
File containing total genomic lengths of features [Default 'data/genomic_features.txt'] |
genome_length |
The total legnth of the genome [Default 118274340 (mappable regions on chroms 2, 3, 4, X & Y for Drosophila melanogastor Dmel6.12)] |
Function to calculate enrichment of snv hits in genomic features
A snv_data frame with FC scores for all genes seen at least n times in snv snv_data
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