Personal Cancer Genome Reporter (PCGR)

面向中文电子病历的命名实体识别

Characterization of Germline variants

Medkey Hospital Information System main repository: Practice Management for Practicioners & Hospitals, EHR, Patient Engagement

Community-maintained list of resources that the CI4CC organization and the larger cancer informatics community have found useful or are developing.

Mutation Identification Pipeline. Read the latest documentation:

We jailbreak your medical records and genomics data. For free.

Seave is a web platform that enables genetic variants to be easily filtered and annotated with in silico pathogenicity prediction scores and annotations from popular disease databases. Seave stores genomic variation of all types and sizes, and allows filtering for specific inheritance patterns, quality values, allele frequencies and gene lists. Seave is open source and deployable locally, or on a cloud computing provider, and works readily with gene panel, exome and whole genome data, scaling from single labs to multi-institution scale.

Disambiguating biomedical and clinical concepts with word embeddings

Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical biologists and wet-lab personnel to do metagenomics/viromics analyses themselves, without bioinformatics expertise.

A fine-tuned BERT using EHR notes.

Reconstruction and analysis of viral and host genomes at multi-organ level

Integrating AI to Clinical Workflow

WIP: A Nextflow pipeline to perform clinical variant annotation and reporting

clinical management app built with nuxt.js

OHNLP/BioCreative 2018 Task 1: Family History Extraction

Analytics done on clinical healthcare parkinsons analytics

A python package for standardized and reproducible processing, analysis, and integration of clinical proteomics data

Source code and dataset for paper 'A Learning-based Model for Assessment of Covid-19 Severity'

Miscellaneous equations tools for clinical pharmacokinetics

Short scripts to demonstrate data available from MolecularMatch API (api key needed). Data includes clinical trials, drugs, publications, molecular information, bioinformatics, report generation and more.

A collection of R functions to perform basic clinical calculations in medical research.

Clinical Data Natural Language Processing

This module lets you upload images from file or webcam and visualize them in the patient chart. Watch: https://youtu.be/7fsqcXmvtro

Shiny app for looking Adaptiv Design for clinical trials and epidemiological study

Microbial Sequence Analysis and Loci-based Typing pipeline for use on NGS WGS data.

Building Data Science Projects

An unofficial website hosting a nicely-formatted archive of the NGC guidelines