Installation¶
Availability¶
DEBKS source code:
Dependencies¶
Python 3 with:
pysam
numpy
pandas
scipy
Install with conda¶
conda install -c colinliuzelin DEBKS -c bioconda
Install with pip¶
pip install DEBKS
Install from source¶
git clone https://github.com/yangence/DEBKS.git
cd DEBKS
pip install -r requirements.txt
python setup.py install
Required files¶
1. Indexed genome FASTA¶
samtools faidx $genome
2. Tabix-indexed gene annotation GTF¶
grep -v '#' $gtf | sort -k 1,1 -k 4,4n | bgzip > sort.gtf.gz
tabix sort.gtf.gz