Software

Open-source tools, libraries, and applications I've developed or contributed to.

scanpy-jupyter-roi

Python

Python library for region of interest selection in Jupyter notebooks. Interoperable with spatial transcriptomics data in AnnData objects, works seamlessly with ScanPy.

bioinformatics next-gen-sequencing omics

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MicroRNAProcessor

Python

Python library to process miRNA fastqs into a counts matrix.

bioinformatics next-gen-sequencing omics

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tweemail-service

Python

Going on X (formerly known as Twitter) sucks. Get a list of tweets from accounts you follow emailed to you instead.

workflow

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bsub-streaming

Python/Shell-Script

Stream outputs of LSF batch submission jobs to your terminal. No more constant bpeeking.

HPC workflow scientific-software

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