added more alpha transparency to some plots that have the ~100,000 per-barcode measurements (global epistasis plots, titration response plateau versus expression plot)
Added the sarbecovirus homolog stripplot showing mean mutation per site versus effect of homolog difference at contact sites (current Figure 5C).
The rest of the changes come from simply running the pipeline (for the first time locally, after upgrading conda environment). Mostly updates to versions from the formerly pushed notebooks.
Mainly was incorporating some changes to plots
The rest of the changes come from simply running the pipeline (for the first time locally, after upgrading conda environment). Mostly updates to versions from the formerly pushed notebooks.