xcltk 0.1.16

xcltk - Toolkit for XClone

xcltk

xcltk is a toolkit for XClone (warning: under development, not stable)

All release notes are available at doc/release.rst

Installation

xcltk is avaliable through pypi. To install, type the following command line, and add -U for upgrading:

pip install -U xcltk

Alternatively, you can install from this GitHub repository for latest (often development) version by following command line

pip install -U git+https://github.com/hxj5/xcltk

In either case, if you don't have write permission for your current Python environment, we suggest creating a separate conda environment or add --user for your current one.

Manual

You can check the full parameters with xcltk -h.

Program: xcltk (Toolkit for XClone)
Version: 0.1.16

Usage:   xcltk <command> [options]

Commands:
  -- BAF calculation
     fixref           Fix REF, ALT and GT.
     rpc              Reference phasing correction.
     pileup           Pileup, support unique counting.

  -- RDR calculation
     basefc           Basic feature counting.

  -- Region operations
     convert          Convert different region file formats.

  -- Others
     -h, --help       Print this message and exit.
     -V, --version    Print version and exit.