Unit Tests

[easlinger]

Perturb-seq Public Datasets

pertpy.data.dixit_2016
pertpy.data.dixit_2016_raw
pertpy.data.adamson_2016_upr_perturb_seq
pertpy.data.adamson_2016_upr_epistasis
pertpy.data.replogle_2022_rpe1
pertpy.data.replogle_2022_k562_gwps

[easlinger]

Candidate Unit Test Data

Single-Cell Pooled Screen

pertpy.data.papalexi_2021()

• Loads quickly
• Small, not a ton of memory (~9GB of RAM total used on my computer when running with Chrome and other apps open)
• Protein

Induced Conditions (non-KO/KD/KI)

pertpy.data.bhattacherjee()

• Loads quickly
• Small
• Set up for Augur analysis via Pertpy tutorial method
• Multi-condition (cocaine administration/withdrawal) for differential prioritization with Augur