dot-expand_cigar_dt: Expand intermediate bam fetch by cigar codes

In jrboyd/seqsetvis: Set Based Visualizations for Next-Gen Sequencing Data

Expand intermediate bam fetch by cigar codes

Description

see sam specs for cigar details

Usage

.expand_cigar_dt(cigar_dt, op_2count = c("M", "D", "=", "X"))

Arguments

cigar_dt	data.table with 5 required named columns in any order. c("which_label", "seqnames", "strand", "start", "cigar")
op_2count	Cigar codes to count. Default is alignment (M), deletion (D), match (=), and mismatch (X). Other useful codes may be skipped regions for RNA splicing (N). The locations of any insterions (I) or clipping/padding (S, H, or P) will be a single bp immediately before the interval.

Value

data.table with cigar entries expanded

jrboyd/seqsetvis documentation built on Oct. 15, 2024, 11:28 p.m.