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72 repositories

moalmanac-db
Public
Underlying content for the Molecular Oncology Almanac's database
precision-cancer-medicine molecular-oncology-almanac
precision-cancer-medicine molecular-oncology-almanac
Python
•
GNU General Public License v2.0
•6•9•20•0•Updated Apr 23, 2026Apr 23, 2026
unexplained_familial_cancer
Public
This repository (currently work in progress) is used to store the code and findings exploring genomic causes of Unexplained Familial Cancer.
Python
•
GNU General Public License v3.0
•0•0•0•0•Updated Apr 22, 2026Apr 22, 2026
moalmanac-browser
Public
Web portal interface for browsing the Molecular Oncology Almanac
python flask molecular-oncology-almanac
python flask molecular-oncology-almanac
Python
•
GNU General Public License v2.0
•1•1•10•0•Updated Apr 21, 2026Apr 21, 2026
moalmanac-db-ella
Public
Underlying content for the Molecular Oncology Almanac's database
Python
•
GNU General Public License v2.0
•6•0•0•0•Updated Apr 10, 2026Apr 10, 2026
moalmanac-news
Public
News website for the Molecular Oncology Almanac
molecular-oncology-almanac
molecular-oncology-almanac
HTML
•
GNU General Public License v2.0
•0•0•1•0•Updated Apr 9, 2026Apr 9, 2026
terra-helper
Public
Terra storage helper
Python
•
GNU General Public License v2.0
•0•0•4•1•Updated Apr 7, 2026Apr 7, 2026
moalmanac-api
Public
API for moalmanac db and web browser 2.0
molecular-oncology-almanac
molecular-oncology-almanac
Python
•
GNU General Public License v2.0
•1•0•7•0•Updated Mar 31, 2026Mar 31, 2026
EAC-multiome
Public
Jupyter Notebook
•
MIT License
•7•17•0•0•Updated Mar 10, 2026Mar 10, 2026
pnet-simulation
Public
Codebase for P-NET (BiNN) simulation paper. Includes P-NET model, and scripts for preprocessing, experiments, and analysis.
Python
•
GNU General Public License v2.0
•0•0•0•0•Updated Mar 2, 2026Mar 2, 2026
moalmanac-docs
Public
Documentation for the Molecular Oncology Almanac
molecular-oncology-almanac
molecular-oncology-almanac
Shell
•
GNU General Public License v2.0
•0•0•0•0•Updated Feb 26, 2026Feb 26, 2026
moalmanac
Public
Molecular Oncology Almanac, a clinical interpretation algorithm paired with a novel underlying knowledge base for precision cancer medicine
python precision-cancer-medicine molecular-oncology-almanac
python precision-cancer-medicine molecular-oncology-almanac clinical-interpretation-algorithm
HTML
•
GNU General Public License v2.0
•6•18•6•2•Updated Feb 2, 2026Feb 2, 2026
moalmanac-db-jad
Public
Underlying content for the Molecular Oncology Almanac's database
Python
•
GNU General Public License v2.0
•6•0•0•0•Updated Jan 30, 2026Jan 30, 2026
snatac-rcc-manuscript
Public
Jupyter Notebook
•
GNU General Public License v2.0
•0•0•0•0•Updated Jan 30, 2026Jan 30, 2026
region-specific-approvals-sop
Public
An SOP for curating region-specific regulatory approvals
Creative Commons Attribution 4.0 International
•0•0•0•0•Updated Jan 9, 2026Jan 9, 2026
moalmanac-matchmaking
Public
Template repository to perform profile-to-cell line matchmaking
molecular-oncology-almanac
molecular-oncology-almanac
Python
•
GNU General Public License v2.0
•0•0•3•0•Updated Oct 22, 2025Oct 22, 2025
moalmanac-portal
Public archive
A cloud-based web portal for accessible clinical interpretation of integrative cancer genomics.
python flask molecular-oncology-almanac
python flask molecular-oncology-almanac
HTML
•
GNU General Public License v2.0
•3•1•3•0•Updated Sep 3, 2025Sep 3, 2025
moalmanac-db-kirtan-summer-2025
Public archive
Underlying content for the Molecular Oncology Almanac's database, Canada
Jupyter Notebook
•
GNU General Public License v2.0
•6•0•0•0•Updated Jul 2, 2025Jul 2, 2025
ped_germline_SV
Public
Analysis of germline SVs in pediatric cancers
Jupyter Notebook
•
GNU General Public License v2.0
•1•3•0•0•Updated Apr 30, 2025Apr 30, 2025
beanie-analysis
Public
Code for reproducing results presented in the BEANIE paper
Jupyter Notebook
•
GNU General Public License v2.0
•0•0•0•0•Updated Mar 3, 2025Mar 3, 2025
beanie
Public
Tool for group biology estimation in single-cell RNAseq data
bioinformatics scrna-seq single-cell
bioinformatics scrna-seq single-cell robustness subsampling gene-signatures signature-scoring differential-enrichment
Python
•
GNU General Public License v2.0
•2•9•0•0•Updated Mar 3, 2025Mar 3, 2025
clinicogenomics-FriendsDontLetFriends
Public
Directly inspired from Chenxin Li's "Friends Don't Let Friends Make Bad Graphs"
GNU General Public License v2.0
•0•0•0•0•Updated Feb 4, 2025Feb 4, 2025
germline-somatic-convergence
Public
Pilot exploration of overlap between germline and somatic alterations in common adult solid tumors
R
•
GNU General Public License v2.0
•0•0•0•0•Updated Jan 29, 2025Jan 29, 2025
chek2_germline
Public
Analysis of germline genetic variants in CHEK2
WDL
•
GNU General Public License v2.0
•0•0•0•0•Updated Jan 29, 2025Jan 29, 2025
miniconda
Public
Dockerfiles for Miniconda
Dockerfile
•
GNU General Public License v2.0
•1•6•0•0•Updated Nov 5, 2024Nov 5, 2024
comut
Public
CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
Python
•
MIT License
•27•99•10•4•Updated Aug 1, 2024Aug 1, 2024
schadendorf-pd1
Public
code and data for Liu, Schilling, et al Nat Med 2019
Jupyter Notebook
•
GNU General Public License v2.0
•6•17•1•0•Updated Aug 1, 2024Aug 1, 2024
SigProfilerAssignment-wrapper
Public
Implementation repository for SigProfilerAssignment
Python
•
GNU General Public License v2.0
•0•0•0•0•Updated Jul 12, 2024Jul 12, 2024
moalmanac-paper
Public archive
Analyses related to Reardon et al. 2021, Integrating molecular profiles into clinical frameworks through the Molecular Oncology Almanac to prospectively guide p…
paper precision-cancer-medicine molecular-oncology-almanac
paper precision-cancer-medicine molecular-oncology-almanac
HTML
•
GNU General Public License v2.0
•4•5•0•1•Updated Mar 13, 2024Mar 13, 2024
pnet
Public
Implementation of P-Net as a flexible deep learning tool to generate insights from genetic features.
Jupyter Notebook
•
GNU General Public License v2.0
•8•9•1•0•Updated Feb 12, 2024Feb 12, 2024
microhet-paper
Public
Jupyter Notebook
•
GNU General Public License v2.0
•0•3•0•0•Updated Jan 17, 2024Jan 17, 2024

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Van Allen Lab

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All

72 repositories

moalmanac-db

unexplained_familial_cancer

moalmanac-browser

moalmanac-db-ella

moalmanac-news

terra-helper

moalmanac-api

EAC-multiome

pnet-simulation

moalmanac-docs

moalmanac

moalmanac-db-jad

snatac-rcc-manuscript

region-specific-approvals-sop

moalmanac-matchmaking

moalmanac-portal

moalmanac-db-kirtan-summer-2025

ped_germline_SV

beanie-analysis

beanie

clinicogenomics-FriendsDontLetFriends

germline-somatic-convergence

chek2_germline

miniconda

comut

schadendorf-pd1

SigProfilerAssignment-wrapper

moalmanac-paper

pnet

microhet-paper

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All

Repositories list

72 repositories