Repositories list

• beagle

  Public
  Voyager Backend

  Python

  •

  Apache License 2.0

  •66 forks•22 stars•9999 issues•1919 pull requests•Updated Apr 23, 2026Apr 23, 2026

• smile-dashboard

  Public

  mskcc/smile-dashboard’s past year of commit activity
  TypeScript

  •

  GNU Affero General Public License v3.0

  •1010 forks•00 stars•00 issues•33 pull requests•Updated Apr 23, 2026Apr 23, 2026

• neoantigen-pipeline

  Public
  Pipeline for computing neoantigen qualities from DNA and RNA-Seq data

  Python

  •

  MIT License

  •11 fork•66 stars•1313 issues•22 pull requests•Updated Apr 23, 2026Apr 23, 2026

• LimsRest

  Public
  the restful service used by the IGO LIMS

  Java

  •22 forks•22 stars•55 issues•44 pull requests•Updated Apr 22, 2026Apr 22, 2026

• igo-sample-submission-node

  Public
  Sample Submission API written in node.js

  JavaScript

  •22 forks•00 stars•11 issue•3131 pull requests•Updated Apr 22, 2026Apr 22, 2026

• igo-lims-plugins

  Public
  Sapio LIMS customizations to workflows for IGO

  Java

  •00 forks•22 stars•11 issue•99 pull requests•Updated Apr 21, 2026Apr 21, 2026

• ridgeback

  Public

  mskcc/ridgeback’s past year of commit activity
  Toil API

  Python

  •

  Apache License 2.0

  •22 forks•11 star•3838 issues•55 pull requests•Updated Apr 21, 2026Apr 21, 2026

• igo-genomics

  Public

  mskcc/igo-genomics’s past year of commit activity
  Vue

  •00 forks•11 star•33 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• igo-delivery

  Public

  mskcc/igo-delivery’s past year of commit activity
  Delivery email, symlinks and permissions for IGO projects

  Python

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•11 pull request•Updated Apr 16, 2026Apr 16, 2026

• phylowgs

  Public
  Application for inferring subclonal composition and evolution from whole-genome sequencing data.

  Python

  •

  GNU General Public License v3.0

  •5656 forks•00 stars•00 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 2026

• igo-sample-qc-node

  Public
  Sample QC with nodejs backend

  JavaScript

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 15, 2026Apr 15, 2026

• igo-run-qc-node

  Public
  JavaScript

  •00 forks•00 stars•00 issues•22 pull requests•Updated Apr 13, 2026Apr 13, 2026

• IrisAI

  Public
  Multi-agent AI assistant for HPC workflows using Model Context Protocol (MCP) and Chainlit.

  Python

  •

  Other

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 11, 2026Apr 11, 2026

• smile-server

  Public
  Java

  •44 forks•22 stars•9292 issues•00 pull requests•Updated Apr 3, 2026Apr 3, 2026

• igo-landing-page

  Public
  JavaScript

  •11 fork•00 stars•00 issues•66 pull requests•Updated Apr 1, 2026Apr 1, 2026

• smile-request-filter

  Public
  CMO MetaDB Request Filter app

  Java

  •

  GNU Affero General Public License v3.0

  •44 forks•00 stars•00 issues•00 pull requests•Updated Mar 27, 2026Mar 27, 2026

• ccs_cohort_utils

  Public
  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Mar 20, 2026Mar 20, 2026

• vcf2maf

  Public
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms

  perlvcfmaf+ 2

  perlvcfmafvepisoforms

  Perl

  •

  Other

  •223223 forks•418418 stars•9494 issues•11 pull request•Updated Mar 13, 2026Mar 13, 2026

• tempo

  Public
  CCS research pipeline to process WES and WGS TN pairs

  Groovy

  •00 forks•77 stars•5252 issues•1212 pull requests•Updated Mar 4, 2026Mar 4, 2026

• beagle_cli

  Public
  Beagle API Command Line Utility

  Python

  •11 fork•11 star•88 issues•33 pull requests•Updated Feb 26, 2026Feb 26, 2026

• facets-preview

  Public
  Load, review and adjust facets fits

  R

  •33 forks•22 stars•1414 issues•00 pull requests•Updated Feb 18, 2026Feb 18, 2026

• smile-label-generator

  Public
  SMILE messaging service for handling CMO label generation

  Java

  •

  GNU Affero General Public License v3.0

  •44 forks•00 stars•00 issues•00 pull requests•Updated Feb 17, 2026Feb 17, 2026

• facets

  Public
  Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.

  R

  •7070 forks•159159 stars•128128 issues•44 pull requests•Updated Feb 12, 2026Feb 12, 2026

• Albany

  Public
  Mission Albany

  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Feb 10, 2026Feb 10, 2026

• smile-client

  Public
  Python

  •11 fork•11 star•00 issues•00 pull requests•Updated Jan 26, 2026Jan 26, 2026

• smile-message-publisher

  Public
  Spring Boot LIMS SampleMetadata publisher framework

  Java

  •

  GNU Affero General Public License v3.0

  •44 forks•00 stars•00 issues•00 pull requests•Updated Jan 9, 2026Jan 9, 2026

• smile-commons

  Public
  Centralized configurations for checkstyle plugin and dependency management.

  Java

  •

  GNU Affero General Public License v3.0

  •44 forks•11 star•00 issues•00 pull requests•Updated Jan 8, 2026Jan 8, 2026

• swabnseq

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 30, 2025Dec 30, 2025

• critfhirdeveloper

  Public template
  CRIT FHIR Developer Documentation

  HTML

  •

  Apache License 2.0

  •21k21k forks•00 stars•00 issues•11 pull request•Updated Dec 18, 2025Dec 18, 2025

• ACCESS-Pipeline

  Public
  cfDNA Sequencing Pipeline with UMI

  cancer-genomics

  cancer-genomics

  Python

  •

  MIT License

  •33 forks•1111 stars•3838 issues•1414 pull requests•Updated Dec 8, 2025Dec 8, 2025