fragmentCounts: Count reads in restriction fragments

In jma1991/Daim: Analysis, interpretation, and visualization of DamID-seq data

Description

Assign mapped sequencing reads to restriction fragments.

Usage

fragmentCounts(reads, fragments, mode = c("inner", "flank"))

Arguments

reads	A character vector of paths to BAM files.
fragments	A GRanges object of restriction fragments.
mode	Read counting mode. Can be either "inner" or "flank".

Value

A RangedSummarizedExperiment object.

jma1991/Daim documentation built on Oct. 4, 2020, 2:21 a.m.