Pinned Repositories
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.
cellpainting_predicts_cardiac_fibrosis
Image-based profiling and machine learning to predict failing vs. non-failing cardiac fibroblasts
coSMicQC
Single cell Morphology Quality Control (coSMicQC)
IDR_stream
Software for feature extraction from IDR image data
JUMP-single-cell
Single cell analysis of the JUMP Cell Painting consortium pilot data (cpg0000)
nf1_schwann_cell_painting_data
This repository contains all the modules to perform image-based analysis with CellProfiler on NF1 Schwann cell data.
phenotypic_profiling
Machine learning for predicting 15 single-cell phenotypes from cell morphology profiles
predicting-cell-injury-compounds
Processing cell-injury profiles using Pycytominer to generate selected features profiles for training a multi-class regression model to identify cellular injury.
pyroptosis_signature_image_profiling
This repository contains the pipelines used to analyze the data sets from the Interstellar collaboration.
waysciencelab.com
Homepage for all happenings in the Way Lab at CU Anschutz
The Way Lab's Repositories
WayScience/coSMicQC
Single cell Morphology Quality Control (coSMicQC)
WayScience/nf1_schwann_cell_painting_data
This repository contains all the modules to perform image-based analysis with CellProfiler on NF1 Schwann cell data.
WayScience/JUMP-single-cell
Single cell analysis of the JUMP Cell Painting consortium pilot data (cpg0000)
WayScience/waysciencelab.com
Homepage for all happenings in the Way Lab at CU Anschutz
WayScience/gene_dependency_representations
WayScience/phenotypic_profiling
Machine learning for predicting 15 single-cell phenotypes from cell morphology profiles
WayScience/pyroptosis_signature_data_analysis
Analysis repository for the pyroptosis morphology map
WayScience/targeted_fibrosis_drug_screen
Image analysis and image-based profiling of a fibrosis drug screen to identify compound hits using a machine learning model.
WayScience/CFReT-compound-prioritization-analysis
WayScience/CytoDataFrame
An in-memory data analysis format for single-cell profiles alongside their corresponding images and segmentation masks.
WayScience/GFF_3D_organoid_profiling_pipeline
WayScience/live_cell_timelapse_apoptosis
WayScience/pairwise_compare
WayScience/pediatric_cancer_atlas_profiling
Image analysis and image-based profiling of pediatic cancer cell lines to extract morphological profiles.
WayScience/MNIST_TD-VAE
Temporal Difference Variational Auto-Encoder (TD-VAE) (Implementation in PyTorch)
WayScience/nf1_schwann_cell_morphology_signature
This repository contains all the modules to split and train a binary classification model to predict NF1 null and wildtype genotype.
WayScience/predicting-cell-injury-compounds
Processing cell-injury profiles using Pycytominer to generate selected features profiles for training a multi-class regression model to identify cellular injury.
WayScience/CFReT-screen-mAP-analysis
Analysis notebooks applying mean average Precision (mAP) to the CFReT screen image-based profiles dataset.
WayScience/CP_Parallel
Traditionally, headless mode for CellProfiler can only run with one worker at a time with one set of images, which can take a long time sequentially. CP Parallel will run multiple instances of CellProfiler in parallel across plates.
WayScience/CPBS7601
Course on computing skills in biomedical informatics
WayScience/demo-cellprofiler
Demonstrating various CellProfiler development or implementations.
WayScience/gc-saguaro_udm_bucket
Cloud Storage bucket on Google Cloud for Saguaro and UdeM data transfer.
WayScience/GFF_2D_organoid_prototyping
WayScience/Kan_we_predict_phenotypes
A repo testing KANs on Image-based profiles
WayScience/NIH_Where2Submit
This is a tool to help you figure out where to submit your grant in the NIH
WayScience/nuclear_speckles_analysis
WayScience/Phenotypic_severity_and_variance
Quantifying Zebrafish opercle bone morphology
WayScience/playbooks
Playbooks relevant to the operations of the Way Lab and similar labs.
WayScience/pyroptosis_live-cell_timelapse
WayScience/sandbox
A place to mess around learning github