Installation instructions
The scripts themselves are Python 2 and 3 compatible, so should be usable by existing Python 2 installs with all necessary dependencies.
For new installations, it is recommended to use Python 3 (Python 2 is no longer being maintained) and Conda (fastest way to install RDkit).
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Create a Python environment with RDkit called 'protein_observed_ms':
conda create -c rdkit -n protein_observed_ms rdkit conda install -n protein_observed_ms biopython scipy matplotlib yaml jupyter conda activate protein_observed_ms pip install cairosvg