Prerequisites

The scripts in this folder require python3, preferrably a relatively recent version (e.g. ≥ 3.5). In addition, you will need to install the following modules:

• pysam
• numpy
• pandas
• twobitreader
• pybedtools
• scipy
• statsmodels
• astropy

The easiest way to install them is:

• If python3 is the default: pip install pysam numpy pandas twobitreader pybedtools scipy statsmodels astropy
• Otherwise: pip3 install pysam numpy pandas twobitreader pybedtools scipy statsmodels astropy

To figure out which version of python is installed by default:

• python -V