Repositories list

• pori_graphkb_client

  Public
  Front-end web client for the GraphKB project

  graphdbknowledge-basegenomic+ 2

  graphdbknowledge-basegenomicpersonalized-medicinepori

  TypeScript

  •

  GNU General Public License v3.0

  •1•9•14•3•Updated Mar 10, 2026Mar 10, 2026

• btl

  Public
  :microscope: Bioinformatics Technology Lab, Genome Sciences Centre

  HTML

  •3•2•4•0•Updated Mar 10, 2026Mar 10, 2026

• pori_ipr_client

  Public
  Integrated Pipeline Reports (IPR) client. The web interface for the reporting application as part of PORI

  bioinformaticsgenomicspersonalized-medicine+ 1

  bioinformaticsgenomicspersonalized-medicinepori

  TypeScript

  •

  GNU General Public License v3.0

  •1•8•0•7•Updated Mar 10, 2026Mar 10, 2026

• pori_ipr_api

  Public
  Integrated Pipeline Reports (IPR) API, the reporting API as part of the PORI platform

  bioinformaticsgenomicspersonalized-medicine+ 1

  bioinformaticsgenomicspersonalized-medicinepori

  JavaScript

  •0•8•0•1•Updated Mar 10, 2026Mar 10, 2026

• pori_python

  Public
  Python

  •

  GNU General Public License v3.0

  •2•0•1•5•Updated Mar 10, 2026Mar 10, 2026

• bcgsc.github.io

  Public
  HTML

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Mar 9, 2026Mar 9, 2026

• pori_graphkb_loader

  Public
  The Loaders for GraphKB. Imports content from external sources via the GraphKB REST API

  etlpori

  etlpori

  JavaScript

  •

  GNU General Public License v3.0

  •4•6•11•4•Updated Mar 6, 2026Mar 6, 2026

• pori_graphkb_api

  Public
  REST API for the GraphKB project

  genomicsgraphdbknowledge-base+ 2

  genomicsgraphdbknowledge-basepersonalized-medicinepori

  JavaScript

  •

  GNU General Public License v3.0

  •1•4•6•1•Updated Feb 11, 2026Feb 11, 2026

• pori_graphkb_schema

  Public
  Shared package between the API and GUI for GraphKB which holds the schema definitions and schema-related functions

  genomicsgraphdbknowledge-base+ 2

  genomicsgraphdbknowledge-basepersonalized-medicinepori

  TypeScript

  •

  GNU General Public License v3.0

  •0•4•0•0•Updated Jan 20, 2026Jan 20, 2026

• pori

  Public
  Platform for Oncogenomic Reporting and Interpretation (PORI)

  genomicspersonalized-medicinepori

  genomicspersonalized-medicinepori

  Shell

  •

  GNU General Public License v3.0

  •8•35•8•1•Updated Jan 10, 2026Jan 10, 2026

• Canadian_Biogenome_Project

  Public
  This repo contains the pipeline used by the Canadian Biogenome Project (http://earthbiogenome.ca) to generate assemblies

  Nextflow

  •1•3•1•1•Updated Sep 25, 2025Sep 25, 2025

• pori_ipr_python

  Public archive
  [ARCHIVED] Python adapter for generating reports uploaded to IPR using the PORI platform

  deprecated

  deprecated

  Python

  •

  GNU General Public License v3.0

  •1•6•0•0•Updated Sep 10, 2025Sep 10, 2025

• pori_graphkb_python

  Public archive
  [ARCHIVED] Python adapter package for querying the GraphKB API

  deprecated

  deprecated

  Python

  •

  GNU General Public License v3.0

  •1•7•0•0•Updated Sep 10, 2025Sep 10, 2025

• RICO

  Public
  R

  •0•0•0•0•Updated Sep 5, 2025Sep 5, 2025

• variant_support_pipeline

  Public
  Nextflow

  •1•0•0•0•Updated Sep 3, 2025Sep 3, 2025

• long_read_pog

  Public
  Analysis code for a cohort of Nanopore-sequenced tumours.

  HTML

  •

  MIT License

  •0•6•0•1•Updated Sep 5, 2024Sep 5, 2024

• IMPALA

  Public
  Integrated Mapping and Profiling of Allelically-expressed Loci with Annotations

  bioinformaticscancersnakemake-workflow+ 1

  bioinformaticscancersnakemake-workflowallele-specific-expression

  R

  •

  GNU General Public License v3.0

  •1•3•2•0•Updated Oct 31, 2023Oct 31, 2023

• TMBur

  Public
  Derive TMB estimates from whole genome fastq files. Runs alignment and variant calling before reporting a variety of TMB estimates

  Nextflow

  •3•5•2•0•Updated Sep 28, 2023Sep 28, 2023

• mavis

  Public
  Merging, Annotation, Validation, and Illustration of Structural variants

  visualizationpythonbioinformatics+ 3

  visualizationpythonbioinformaticsgenomicstranscriptomestructural-variation

  Python

  •

  GNU General Public License v3.0

  •14•75•32•1•Updated Aug 22, 2023Aug 22, 2023

• pori_graphkb_parser

  Public
  A package for parsing and recreating HGVS-like variant notation used in GraphKB

  genomicsknowledge-basepersonalized-medicine+ 2

  genomicsknowledge-basepersonalized-medicinevariant-notationpori

  TypeScript

  •

  GNU General Public License v3.0

  •0•4•1•0•Updated Aug 3, 2023Aug 3, 2023

• mavis_config

  Public
  Workflow configuration validation for MAVIS via snakemake

  Python

  •

  GNU General Public License v3.0

  •1•0•0•1•Updated Jun 14, 2023Jun 14, 2023

• sqlalchemy_hawq

  Public
  Custom dialect for using SQLAlchemy with a HAWQ database which extends the postgres dialect

  pythonsqlalchemyhawq

  pythonsqlalchemyhawq

  Python

  •

  MIT License

  •0•2•0•0•Updated May 15, 2023May 15, 2023

• PyVCF

  Public
  A Variant Call Format reader for Python.

  Python

  •

  Other

  •227•0•0•0•Updated Mar 9, 2023Mar 9, 2023

• pori_cbioportal

  Public
  cBioportal adaptor for creating PORI reports in IPR

  genomicspersonalized-medicinepori

  genomicspersonalized-medicinepori

  Python

  •

  GNU General Public License v3.0

  •1•2•0•0•Updated Jan 22, 2022Jan 22, 2022

• mirna

  Public
  microRNA profiling pipeline

  Perl

  •44•82•4•0•Updated Jan 18, 2022Jan 18, 2022

• lcm

  Public
  lcm

  Java

  •0•1•1•0•Updated Nov 26, 2020Nov 26, 2020

• qupath-annotation-exchange

  Public
  An extension for QuPath for importing JSON annotations made in a GSC internal application

  Java

  •0•2•0•0•Updated Jun 12, 2020Jun 12, 2020

• abyss-build-env

  Public
  Dockerfile

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Jan 3, 2020Jan 3, 2020

• integrative_analysis_chip

  Public
  ChIP-Seq pipeline for integrative analysis

  Python

  •5•0•0•0•Updated Oct 1, 2019Oct 1, 2019

• orca

  Public
  :whale: Genomics Research Container Architecture

  R

  •

  GNU General Public License v3.0

  •13•48•21•0•Updated Aug 30, 2019Aug 30, 2019