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scverse / pertpy

Perturbation Analysis in the scverse ecosystem.
https://pertpy.readthedocs.io/en/latest/
MIT License
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Add sciplex-GxE dataloader #576

Closed namsaraeva closed 3 months ago

namsaraeva commented 3 months ago

Added a dataloader for the sciPlexGxE HPRT1 & MMR GxE screens from https://www.cell.com/cell-genomics/fulltext/S2666-979X(23)00339-7.

The second screen is too heavy to be added yet (ca. 35GB), so I will upload the concatenation scripts in the pertpy-datasets repo.

codecov[bot] commented 3 months ago

Codecov Report

All modified and coverable lines are covered by tests :white_check_mark:

Project coverage is 63.48%. Comparing base (ff24b3a) to head (9df0845).

Additional details and impacted files ```diff @@ Coverage Diff @@ ## main #576 +/- ## ======================================= Coverage 63.48% 63.48% ======================================= Files 43 43 Lines 5094 5094 ======================================= Hits 3234 3234 Misses 1860 1860 ``` | [Files](https://app.codecov.io/gh/theislab/pertpy/pull/576?dropdown=coverage&src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=theislab) | Coverage Δ | | |---|---|---| | [pertpy/data/\_\_init\_\_.py](https://app.codecov.io/gh/theislab/pertpy/pull/576?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=theislab#diff-cGVydHB5L2RhdGEvX19pbml0X18ucHk=) | `100.00% <ø> (ø)` | | | [pertpy/data/\_datasets.py](https://app.codecov.io/gh/theislab/pertpy/pull/576?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=theislab#diff-cGVydHB5L2RhdGEvX2RhdGFzZXRzLnB5) | `100.00% <ø> (ø)` | |