- 🎓 I earned my Ph.D. in the Bioinformatics and Computational Biology (BCB) program at UNC-CH, where I studied 3D chromatin structure and transcription in human development and disease in the Phanstiel Lab.
- 🔬 I work at Vindhya Data Science as a Data Engineer/Scientist, where I help clients build and improve their scientific software ecosystem and transform their data into actionable decisions.
- 🖥 I also like to build software for Bioconductor to analyze, visualize, and understand genomic data.
Check out my...
- 💾 Software
- 📚 Publications
- 📜 Resume
A 90-minute Bioconductor 2023 workshop exploring Hi-C data with mariner, DEseq2 and plotgardener. In this workshop, we use mariner and DEseq2 to find differential loops in a cellular differentiation dataset. Differential loops are aggregated with mariner functions and visualized with plotgardener.
A 45-minute Bioconductor 2022 package demo of the nullranges package, co-led by Wancen Mu. In this demo, we use the covariate matching and block bootstrap functionality of nullranges to generate sets of null-hypothesis ranges.
A 5-minute Bioconductor 2021 lightening talk demonstrating the use of nullranges::matchRanges() for generating covariate-matched, null-hypothesis genomic ranges and visualizing them with plotgardener (formerly BentoBox).
📓 Paper 🧵 Twitter thread 🙌 Poster
Bioconductor contributions 🎶
| Package | BioC-devel | BioC-release |
|---|---|---|
| mariner |  |
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| marinerData |  |
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| nullranges |  |
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| nullrangesData |  |
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| plotgardener |  |
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| Pipeline | Data type(s) | Latest Version |
|---|---|---|
| dietJuicer | Hi-C, Micro-C | 1.0.0 |
| MicroC | Hi-C, Micro-C | TBD |
| bagPipes | RNA-seq, ChIP-seq, ATAC-seq, CUT&RUN | TBD |