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basicpy

benchmarking_nf1_data

Benchmarking data processing strategies for Cell Painting data of NF1 Schwann cells. See analysis repository (https://github.com/WayScience/NF1_SchwannCell_data_analysis) for information on how the data was interpreted.

cell-health-data

Data processing for the Cell Painting data from the Cell Health experiments

cell-morphology-power-analyses

Power analyses for cell morphology readouts

cellprofiler_prototyping

This repository contains CellProfiler pipelines testing various steps within a cell image analysis pipeline.

cfret_data

Image-based analysis of cardiac fibroblast datasets to uncover proprietary drug impact on reversing fibrosis

cosmicqc

Single cell Morphology Quality Control (coSMicQC)

cpbs7601

Course on computing skills in bioinformatics

cytocherrypick

cytodata-faculty-search

Searching for faculty that conduct cell morphology research

cytosnake

Orchestrating high-dimensional cell morphology data processing pipelines

cytosnake-benchmarks

CytoSnake benchmarks

cytotoxic-nuisance-metadata-analysis

Processing cell-injury profiles using Pycytominer to generate selected features profiles for training a multi-class regression model to identify cellular injury.

cytotrajectory

CytoTrajectory: Drug Screening Trajectory Tracking with Image-based Profile Interpretability using Variational Auto Encoders (VAEs)

drug_viability_data

Exploring large-scale drug viability datasets

gc-assayworks-bucket

Cloud Storage bucket on Google Cloud for Assay.Works data transfer.

gc-bucket-alsf-predicting-nuclear-speckles

GCP bucket for ALSF collaborations on predicting nuclear speckles.

gc-bucket-em-morphology-tokyo

GCP bucket for EM morphology data collaborations.

gc-durbinlab-bucket

Cloud Storage bucket on Google Cloud for Durbin Lab data transfer.

gene_dependency_representations

ic_test

This repository holds all of the research and code used to develop IC Test.

idr_stream

Software for feature extraction from IDR image data

illumination-correction-benchmarking

jump-single-cell

Single cell analysis of the JUMP Cell Painting consortium pilot data (cpg0000)

lab-website-template

(Pre-release) An easy-to-use, flexible website template for labs, with automatic citations, GitHub tag imports, pre-built components, and more

live_cell_timelapse_apoptosis

live_cell_timelapse_apoptosis_analysis

macrophage-striation-analysis

Analysis repository understanding striation patterns in macrophages.

mitocheck-map-analysis

Utilizing the mean average precision (MAP) metric to assess reproducibility and perturbation effect on single-cell profiles in the MitoCheck dataset.

mitocheck_data

All information regarding the download and processing of Mitocheck data from IDR study with accession idr0013 (screenA).