perturb.pl function issue

[hanhuajun40]

Hi, Dr. Ursu,

Thanks for sharing the code for perturbseq analysis, which is super useful. Currently there are different versions of perturbseq packages (KCO/perturbseq or Oursu/perturbseq). The functions from these two versions are not the same. I installed KCO/perturbseq package, and followed your shared scripts from your recent nice paper (Otto et al., 2023, Molecular Cell 83, 1350–1367), but many error messages showed up. For instance, in 2022-03-27.guide_qc.ipynb document, both perturb.pl.perturbs_per_cell and perturb.pl.cells_per_perturb cannot work, since the function names seem frequently interchangeable between KCO/perturbseq or Oursu/perturbseq, so that it caused many issues. Can you troubleshoot this issue and update the package. Very appreciated!
Best,