Explore projects

An introduction to singularity

An Astrocyte workflow to clean single cell or single nucleus RNA data of technical artifacts using the tool CellBender.

BFei's student group project placenta segmentator

A general purpose Astrocyte workflow to run quality control on single cell RNA sequencing data.

AI segmentation for axial T2W MR Autosomal Dominant Polycystic Kidney Disease (https://github.com/aksg87/adpkd-segmentation-pytorch)

Gearification of Sybil Lung Cancer Risk Prediction (https://github.com/reginabarzilaygroup/Sybil)

Move Flywheel data to box.com

FLywheel Gearification of https://gitlab.com/Michael_Paris/AutoMATiCA/

The general gene expression analysis pipeline of 10X Visium data

An Astrocyte workflow to run cellranger count on droplet-based single cell RNA data generated by 10x Genomics.

Program that overlays MEG dipoles onto MRI images and provides region highlighting to show where the dipoles are located.

Transcript Analyzer is a module that aids in looking at and identifying target phrases in transcripts. There are two main files ProbTimeSeries.py and TranscriptAnalyzer.py the latter of which uses Streamlit to create an app