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broadinstitute / 2022_PERISCOPE

This repository contains all supporting analyses and files for Ramezani, Bauman, Singh, and Weisbart, et al. "A genome-wide atlas of human cell morphology".
BSD 3-Clause "New" or "Revised" License
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Subsampling mAP analysis based on lukes data #26

Closed MerajRamezani closed 3 months ago

MerajRamezani commented 3 months ago

@ErinWeisbart here is the data for the new supplemental figure based on Luke's data

MerajRamezani commented 3 months ago

@ErinWeisbart The other supplemental figures with associated code

ErinWeisbart commented 3 months ago

@MerajRamezani Supplemental Z (the subsampling) doesn't include the data_subsample_aggregated_{n}_cells.csv files. Can you add those? Thanks.

MerajRamezani commented 3 months ago

@MerajRamezani Supplemental Z (the subsampling) doesn't include the data_subsample_aggregated_{n}_cells.csv files. Can you add those? Thanks.

@ErinWeisbart They are about 70 mb each so you they might work better on the gallery. I uploaded them to AWS here: s3://pooled-cell-painting/projects/2018_11_20_Periscope_Calico/workspace/PERISCOPE_2022_LFS/

ErinWeisbart commented 3 months ago

Thanks @MerajRamezani ! I made a number of small changes to the notebooks - mainly around keeping naming and outputting structure consistent and cleaning up some of the graph labeling. The one major thing is I went ahead and plotted the average mAP by FDR for the whole profile and compartment hits on the same plot, as we discussed in checkin this week. Supplemental_x/outputs/figure_panels/HeLa_DMEM_average_mAP_hits_parsed.png I'm going to merge now and we can change X, Y, Z to numbers as part of another PR when we relabel many of the figures.