amnatate

Description

Asses draft genome completeness using a hash based approach.

Credits

Concept: Johnathan Wong and Rene L. Warren

Design and implementation: Johnathan Wong

Installing from source code:

Github repository main branch

 git clone https://github.com/bcgsc/amnatate.git
 cd amnatate
 meson --prefix /path/to/install build
 cd build
 ninja install

Dependencies

• GCC 7+ with OpenMP
• python 3.9+
• zlib
• meson
• ninja
• tcmalloc
• sdsl-lite
• libdivsufsort
• btllib
• libsequence

Installing Dependencies with Conda

We recommend creating a fresh environment

conda create --name amnatate

Installing the dependencies

conda install -c conda-forge -c bioconda --file requirements.txt

License

amnatate Copyright (c) 2022 British Columbia Cancer Agency Branch. All rights reserved.

amnatate is released under the GNU General Public License v3

This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, version 3.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/.

For commercial licensing options, please contact Patrick Rebstein ([email protected]).