Software
Below are some of the main software packages maintained by our lab. For a complete list of projects, check out the https://github.com/jbloomlab (most lab projects) and https://github.com/dms-vep (projects related to deep mutational scanning of viral entry proteins).
alignparse
Python package to parse complex user-defined features from long-read PacBio sequencing.
Check out the documentation
dms-vep-pipeline-3
Snakemake pipeline for analyzing deep mutational scanning of barcoded viral entry proteins.
Check out the documentation
dms-viz
Interactive web tool for visualizing mutation data on a protein structure.
Check out the documentation
polyclonal
Python package for modeling mutational escape from polyclonal antibodies using deep mutational scanning data.
Check out the documentation
seqneut-pipeline
Snakemake pipeline for analyzing sequencing-based neutralization assays.
Check out the documentation