afermg

Postdoctoral associate @broadinstitute's Imaging Platform in the Carpenter-Singh Lab

Broad InstituteCambridge, MA

Pinned Repositories

2023-advent-of-code
This year I am using Racket/Scheme to work out the problems.
Language:Racket1 1 00
2024_04_hackathon_brainstorm
Slides for hackathon brainstorm session
Language:TeX1 1 00
2024_05_JUMPTools_CellCircuits
Slides for Cell Circuits talk
Language:TeX1 1 00
2024_06_broadhacks
Slides for broadhacks presentation
Language:TeX1 1 00
2024_06_lisp_primer_CSTutorials
Slides for my presentation on lisp
Language:TeX1 1 00
aliby
End-to-end processing of high throughput microscopy. Developed as part of the Swain Lab's strategy for high throughput microscopy.
Language:Python0 2 00
compute_mgmt
Scripts and tools to manage compute, excluding dotfiles.
1 1 00
cp_measure
Isolating CellProfiler Measurements from the frontend codebase
Language:Python7 1 12
nix-configs
Reproducible OS for both Linux and MacOS
Language:Nix0 1 01
monorepo
Compendium of tools for the Imaging Platform
Language:Python9 9 201

afermg's Repositories

afermg/cp_measure
Isolating CellProfiler Measurements from the frontend codebase
Language:Python7 1 12
afermg/2024_04_hackathon_brainstorm
Slides for hackathon brainstorm session
Language:TeX1 1 00
afermg/2024_06_broadhacks
Slides for broadhacks presentation
Language:TeX1 1 00
afermg/lots_of_images
Tools and scripts to deal with many and/or big images
Language:Shell1
afermg/aliby
End-to-end processing of high throughput microscopy. Developed as part of the Swain Lab's strategy for high throughput microscopy.
Language:Python0 2 00
afermg/nix-configs
Reproducible OS for both Linux and MacOS
Language:Nix0 1 01
afermg/2023_12_ascb_poster
Poster for the American Society of Cell Biology, 2023 Edition
Language:TeX1 0
afermg/2024_02_slas_poster
Poster for the Society for Laboratory Automation and Screening, 2024 Edition
Language:TeX1 0
afermg/2024_07_funkelab
Slides for JUMP-related potential collaboration
Language:TeX1 0
afermg/2024_07_JUMP_devtools
Slides for Special topics in preparation to the JUMP hackathon
Language:TeX1 0
afermg/2024_09_hackathon
Slides, planning materials and resources wrt the 2024 Cytodata Hackathon
Language:TeX1 0
afermg/2024_10_i2k_poster_flashtalk
Poster and flashtalk for I2K 2024 in Milan, Italy
Language:TeX
afermg/2024_12_attribution_broad_retreat
Template for 2024's Broad Retreat poster
Language:TeX
afermg/afermg
Personal repository
afermg/cellpainting-gallery
Cell Painting Gallery
afermg/CellProfiler
An open-source application for biological image analysis
afermg/centrosome
An open source image processing library
Language:Python
afermg/clouds
All my configs
Language:Nix2 0
afermg/copairs
Copy of original copairs to add poetry toolset
Language:Python1 0
afermg/cytodata.github.io
CytoData Society website
afermg/datasets
Images and other data from the JUMP Cell Painting Consortium
Language:Jupyter Notebook
afermg/hiking-planning-analytics
Assorted hiking trips and data analysis used to pick the routes
Language:Nix1 0
afermg/imagecodecs
Image transformation, compression, and decompression codecs
Language:Cython
afermg/imagecodecs-nix
WIP derivation to generate an imagecodecs package
Language:Nix1 0
afermg/jump_attribution
Using attribution from counterfactuals to JUMP data
Language:Jupyter Notebook
afermg/Label-free-prediction-of-Cell-Painting-from-brightfield-images
Label Free Prediction of Cell Painting from Brightfield Images
Language:Python0 0
afermg/nix-difussers-setup
Basic setup to use stable diffusion and User interfaces.
Language:Nix
afermg/nixpkgs
Nix Packages collection & NixOS
Language:Nix1 0
afermg/simple-rag
Semantic search using txtai
Language:Nix
afermg/zenodo-upload
upload big files to Zenodo using cURL, jq and bash
Language:Shell0 0