bowtie2_align: Bowtie2 Alignment

In Bankso/ZentTools_too: What the Package Does (One Line, Title Case)

Description

Bowtie2 Alignment

Usage

bowtie2_align(
  zent_obj,
  outdir = getwd(),
  alignment_mode = "end-to-end",
  min_fragment = NA,
  max_fragment = NA,
  max_memory = "1G"
)

Arguments

zent_obj	Zent object.
outdir	Output directory for aligned reads.
alignment_mode	Either 'end-to-end' or 'local'.
min_fragment	Minimum fragment length (paired end).
max_fragment	Maximum fragment length (paired end).
max_memory	Maximum memory per thread for samtools.

Bankso/ZentTools_too documentation built on Jan. 18, 2021, 5:36 p.m.