Shantanu Singh's repositories
lincs-cell-painting
Processed Cell Painting Data for the LINCS Drug Repurposing Project
2018_04_20_Rosetta
Translating morphology data across single-cell modalities (CZI)
2023_Moshkov_NatComm
Predicting assays Using Morphological Analysis
awesome-cytodata
A curated list of awesome cytodata resources
cellpainting-gallery
Cell Painting Gallery
cellprofiler-on-Terra
Run CellProfiler on Terra. Contains workflows that enable a full end-to-end Cell Painting pipeline.
cpg
Cell painting gallery
datasets
Images and other data from the JUMP Cell Painting Consortium
DeepProfiler-handbook
Documentation for installing and using of DeepProfiler
EFAAR_benchmarking
External repo for the EFAAR benchmarking paper
grit-benchmark
Benchmarking a metric used to evaluate a perturbation strength
lamin-blog
Data science & engineering in biology.
luad-cell-painting
Repository for analysis of CellPainting data in the LUAD dataset
markdown-datasheet-for-datasets
Markdown template for Dataseets for Datasets
matric-vm
Packer scripts for creating a matric VM
open-data-registry
A registry of publicly available datasets on AWS
paper-bray2017
Source code from Bray et al., (2017) A dataset of images and morphological profiles of 30,000 small-molecule treatments using the Cell Painting assay.
pycytominer
cytominer python package
snowChat
Chat snowflake database - Text to SQL
sphering
Experiments with whitening