celalp

pytxdb

Package to create and query R's txdb-esque database with some additional features

video_parser

parse gut slice videos frame by frame into excel with object or movement tracking

R_visualization_lecture

ccm_python_bootcamp

Instructions and material related to 2023 CCM introduction to python bootcamp

clinpy

simple database and methods to combine clinical RNA-Seq data

parse_pileup

Parse pileup files, generate consensus fasta and calculate heteroplasmy per nucleotide

af_bootcamp

alphafold

Open source code for AlphaFold.

ANEVA-DOT

Tests Allelic Expression data for extreme imbalance w.r.t. population

cellranger

10x Genomics Single Cell 3' Gene Expression and VDJ Assembly

clin_seqR

a shiny app to visualize clinical RNA-seq and compare to GTEX

ColabFold

Making Protein folding accessible to all via Google Colab!

comp_on_rnaseq

Compute ontarion rna seq lecture necessary files

crg2

Research pipeline for exploring clinically relevant genomic variants

d2l-en

Interactive deep learning book with multi-framework code, math, and discussions. Adopted at 300 universities from 55 countries including Stanford, MIT, Harvard, and Cambridge.

django-jazzmin

Jazzy theme for Django

ed_notes_scripts

masif_compare

implementation of masif pipeline for surface comparison

meningioma

Shiny app for meningioma data

ParallelFold

Modified version of Alphafold to divide CPU part (MSA and template searching) and GPU part. This can accelerate Alphafold when predicting multiple structures

rBLAST

Interface for the Basic Local Alignment Search Tool (BLAST) - R-Package

rfdiffusion-pipeline

Implementation of the RFdiffusion validation pipeline on the SickKids HPC cluster.

RNASeq_lecture

rnaseq_snake

basic snakefile for RNA-Seq in active development

RoseTTAFold

This package contains deep learning models and related scripts for RoseTTAFold

scPred

scPred package for cell type prediction from scRNA-seq data

seurat-wrappers

Community-provided extensions to Seurat

statistical_test_lecture

These are the lecture materials for CCM's statistical testing lecture

torque

torque scheduler to tinker with pipelines

xenon-docker-images

Dockerfiles for Xenon integration testing