A general-purpose forward-time population genetics simulation environment.

ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.

Synthetic Patient Population Simulator

KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.

An open-source storage framework that enables building a Lakehouse architecture with compute engines including Spark, PrestoDB, Flink, Trino, and Hive and APIs

The second version of the Kraken taxonomic sequence classification system

Converts HL7 v2 Messages to FHIR Resources

Official code repository for GATK versions 4 and up

Robs manual for the computational genomics and bioinformatics class.

Easy to use extractive text summarization with BERT

Medical Concept Annotation Tool

short introduction to sql for absolute beginners titled: 'from zero to query'

🔥 HAPI FHIR - Java API for HL7 FHIR Clients and Servers

Official source for the HL7 FHIR Specification

Useful code for querying the NHSBSA Open Data Portal API.

The standards used by the NHSBSA for Open Data releases

Robust Speech Recognition via Large-Scale Weak Supervision

BioBERT: a pre-trained biomedical language representation model for biomedical text mining

TensorFlow code and pre-trained models for BERT

Bioinformatics'2020: BioBERT: a pre-trained biomedical language representation model for biomedical text mining

光 HikariCP・A solid, high-performance, JDBC connection pool at last.

Library for clinical NLP with spaCy.

An immutable SQL database for application development, time-travel reporting and data compliance. Developed by @juxt

A high-performance, zero-overhead, extensible Python compiler using LLVM