My name is Joseph Rich, and I am an MD/PhD student in the USC-Caltech MD/PhD program. I am currently a PhD student in the Pachter lab at Caltech with interests including computational biology, artificial intelligence, and medical imaging.
My projects:
- varseek: variant screening with k-mer based methods - https://github.com/pachterlab/varseek.git
- Single Cell RNA-seq package selection and version control analysis (RMEJLBASBMP_2024) - a comparison of package selection (Seurat, Scanpy) and versioning on scRNA-seq workflows: https://github.com/pachterlab/RMEJLBASBMP_2024.git
- fastQpick: sampling of fastQ read data with or without replacement - https://github.com/pachterlab/fastQpick.git
- gget (mutate, cbio, cosmic) - genomic database querying: https://github.com/pachterlab/gget.git
- Voyager Python (Visium, Xenium vignettes) - spatial transcriptomic analysis through a geospatial lens: https://github.com/pachterlab/voyagerpy.git
Select publications:
My full list of publications: https://scholar.google.com/citations?user=vtDtrHoAAAAJ&hl=en&oi=sra