Valeh Amiri - PhD Candidate

Valeh Amiri

PhD Candidate

Palo Alto, California, United States

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Summary

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Rockstar

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Top School

Valeh Amiri is a PhD candidate in Genetics at Stanford with 11 years of software engineering experience building robust sync and storage systems and contributing to cutting-edge single-cell omics tooling. He spent several years on OneDrive’s desktop sync team at Microsoft where he helped design the List sync engine, Files on Demand, and SharePoint List synchronization—work that led to two patents. As a research engineer at Berkeley and Stanford he bridges computational biology and software engineering, contributing back-end code and documentation to the prominent scvi-tools project for single-cell and spatial omics. Comfortable across low-level system engineering and probabilistic ML tooling, he blends rigorous academic training (Télécom Paris, Columbia) with production-grade product delivery in the Bay Area. An uncommon combination of kernel/driver experience, large-scale sync architecture, and active bioinformatics open-source contributions makes him adept at turning complex research workflows into reliable, usable software.

11 years of coding experience

8 years of employment as a software developer

Diplôme d’ingénieur (B.S. + M.S.) Computer Science & Electrical Engineering, Diplôme d’ingénieur (B.S. + M.S.) Computer Science & Electrical Engineering at Télécom Paris

MPSI / MP-star Advanced Mathematics and Physics, MPSI / MP-star Advanced Mathematics and Physics at Lycée du Parc

Master of Science - MS Computer Engineering, Master of Science - MS Computer Engineering at Columbia University

Doctor of Philosophy - PhD Genetics, Doctor of Philosophy - PhD Genetics at Stanford University

French, English, Italian, Persian, Hindi

Github Skills (7)

python10

documentation10

pytorch9

release-management9

deep-learning8

machine-learning8

git7

Programming languages (5)

JavaScriptHTMLJupyter NotebookPythonFortran

Github contributions (5)

scverse/scvi-tools

Sep 2021 - Jan 2023

Deep probabilistic analysis of single-cell and spatial omics data

Role in this project:

Back-end Developer & Documentation Specialist

Contributions:104 reviews, 118 commits, 49 PRs in 1 year 4 months

Contributions summary:Valeh primarily contributed to the maintenance and documentation of the scvi-tools repository. Their work involved updating the contributing guide with specific installation steps and creating release notes for version 0.14.0, 0.14.5, and 0.18.0. The user also made minor fixes, including addressing PR feedback, improving documentation docstrings, and updating the codebase overview schematic. Additionally, the user made changes to support latent mode in SCVI models, and JVAE calls.

hierarchicaldeep-generative-modelmixture-of-expertssingle-cell-rna-seqsingle-cell

YosefLab/scvi-model-zoo

Oct 2021 - Sep 2022

Repository of pre-trained scvi models and datasets

Contributions:24 reviews, 15 PRs, 46 pushes in 10 months

pytorchdeep-learningdatasetpre-traineddatasets

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