K-mer abundances for density calculations

Nested list of k-mer counts keyed by BSgenome.Hsapiens.1000genomes.hs37d5 / BSgenome.Hsapiens.UCSC.hg38 / BSgenome.Mmusculus.UCSC.mm10, then by exome / transcript / genome, then by catalog size as a string ("78", "96", "136", "144", "192", "1536"). Each leaf value is a named integer vector: k-mer → count.

Usage

all.abundance

Format

An object of class list of length 3.

Details

Used to convert counts to density (mutations per megabase of context). See the planned transform_catalog() function (not yet ported).

Examples

all.abundance$BSgenome.Hsapiens.UCSC.hg38$transcript$`144`[1:5]
#>       AA       AC       AG       AT       CA 
#> 90769160 57156295 85738416 87552737 83479655