preprocess

Contents

• preprocess
  • Overview
  • Command-line usage
  • Examples

Overview

simulate_library is a program within the sortseq_tools package which creates a library of random mutants from an initial wildtype sequence and mutation rate.

After you install `sortseq_tools`_, this program will be available to run at the command line.

Command-line usage

usage: sortseq preprocess [-h] [--split] [--all] [--combine] [--quality]
                          [--check_alignment] [--check_alignment_max]
                          [-wt WTFILE] [-bc_F BCFILE_F] [-bc_R BCFILE_R]
                          [-f FORWARD] [-r REVERSE] [--prefix PREFIX]
                          [--readlength READLENGTH]

Options:

--split=False	Undocumented
--all=False	Undocumented
--combine=False
	Undocumented
--quality=False
	Undocumented
--check_alignment=False
	Undocumented
--check_alignment_max=False
	Undocumented
-wt, --wtfile	wt sequences file for removing sequences with insertions or deletions
-bc_F, --bcfile_F
	barcode file
-bc_R, --bcfile_R
	barcode file
-f, --forward	forward read file
-r, --reverse	reverse read file
--prefix	Save prefix
--readlength	Paired end read length for combining

Examples