jonhsussman

MD/PhD Student at University of Pennsylvania Genomics and Computational Biology

Pinned Repositories

create_cisTarget_databases
Create cisTarget databases
Language:Python41 9 538
imcRtools
An R package for handling and analysing imaging mass cytometry data
Language:R20 14 7610
ark-analysis
Integrated pipeline for multiplexed image analysis
Language:Jupyter Notebook00
FlowSOM
Using self-organizing maps for visualization and interpretation of cytometry data
Language:R10
imctools
Tools to handle IMC data
Language:Python00
cellpose
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
Language:Jupyter Notebook1.4k 29 881390
liana
LIANA: a LIgand-receptor ANalysis frAmework
Language:R181 9 16132
seurat
R toolkit for single cell genomics
Language:R2.3k 73 8k911
spatial-bonemarrow-atlas
This repository contains the code used to generate figures and perform analysis for the manuscript titled "Transcriptomic and Spatial Proteomic Profiling Reveals the Cellular Composition and Spatial Organization of the Human Bone Marrow Microenvironment"
Language:Jupyter Notebook719

jonhsussman/FlowSOM
Using self-organizing maps for visualization and interpretation of cytometry data
Language:R10
jonhsussman/ark-analysis
Integrated pipeline for multiplexed image analysis
Language:Jupyter Notebook00
jonhsussman/imctools
Tools to handle IMC data
Language:Python00