This is a repo of tools for processing data from Oxford Nanpore Technologies
python -m venv .venv
pip install -r requirements-htseq.txt
cd htseq
python setup.py build
python setup.py install
cd ..
python count.py -h
python count.py -s=no htseq/example_data/3356_sample_1_aln_hg19.sam htseq/example_data/hg19.refGene.gtf
python count.py -s=no htseq/example_data/3356_sample_1_aln_hg19.sam htseq/example_data/hg19.refGene.gtf -q -c='htseq/example_data/3356_count.
txt'