drylab:gtftk_installation
gtftk is a program that you can use to assess and modify .gtf files (the standard file format for genome annotations).
I have used it to modify my gtf files for use in the STAR alignment program and to generate a reference for the Curio Seeker pipeline.
The gtftk github page [ https://github.com/dputhier/pygtftk ] provides some installation instructions. Although they recommend using conda, my conda build did not work, so I ended up using pip instead:
git clone https://github.com/dputhier/pygtftk.git |
cd pygtftk |
pip install -r requirements.txt |
python setup.py install |
pip install pygtftk
and then I used conda to install bedtools:
conda install bioconda::bedtools
/opt/bitnami/dokuwiki/data/pages/drylab/gtftk_installation.txt · Last modified: 2024/04/26 09:55 by kerryg