Starred repositories
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.
A pipeline for the analysis of CRISPR edited data. It allows the evaluation of the quality of gene editing experiments using targeted next generation sequencing (NGS) data (`targeted`) as well as t…
Assembly and intrahost/low-frequency variant calling for viral samples
A fully hosted system for the management of the incident reporting process in Node.js with security best practices.
Chat with your database (SQL, CSV, pandas, polars, mongodb, noSQL, etc). PandasAI makes data analysis conversational using LLMs (GPT 3.5 / 4, Anthropic, VertexAI) and RAG.
🏥 A simple but multi-functional HMS application that can deal with the regular tasks of a mid-range hospital and can be used in any platform. 🩺
Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more
Realtime Web Apps and Dashboards for Python and R
Source files for the LinkedIn Learning Course
Tika-Python is a Python binding to the Apache Tika™ REST services allowing Tika to be called natively in the Python community.
🦠 A simple and fast (< 200ms) API for tracking the global coronavirus (COVID-19, SARS-CoV-2) outbreak. It's written in python using the 🔥 FastAPI framework. Supports multiple sources!
Data on COVID-19 (coronavirus) cases, deaths, hospitalizations, tests • All countries • Updated daily by Our World in Data
Open-LIMS - The Open-Source Laboratory Information Management System
Baobab LIMS is an open-source laboratory information management system (LIMS)
Code for Mastering Python for Bioinformatics (O'Reilly, 2021, ISBN 9781098100889)
OpenELIS 2.X is a rewrite of the original OpenELIS global with updated components and technology
Curated list of project-based tutorials
An opinionated list of awesome Python frameworks, libraries, software and resources.
Learn how to design large-scale systems. Prep for the system design interview. Includes Anki flashcards.
