Pinned Repositories
af_bootcamp
alphafold
Open source code for AlphaFold.
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
pytxdb
Package to create and query R's txdb-esque database with some additional features
R_visualization_lecture
ribofootprintR
Fast data processing for ribosome footpring profiling experiments from bam files
video_parser
parse gut slice videos frame by frame into excel with object or movement tracking
celalp's Repositories
celalp/pytxdb
Package to create and query R's txdb-esque database with some additional features
celalp/video_parser
parse gut slice videos frame by frame into excel with object or movement tracking
celalp/R_visualization_lecture
celalp/ccm_python_bootcamp
Instructions and material related to 2023 CCM introduction to python bootcamp
celalp/clinpy
simple database and methods to combine clinical RNA-Seq data
celalp/parse_pileup
Parse pileup files, generate consensus fasta and calculate heteroplasmy per nucleotide
celalp/af_bootcamp
celalp/alphafold
Open source code for AlphaFold.
celalp/ANEVA-DOT
Tests Allelic Expression data for extreme imbalance w.r.t. population
celalp/cellranger
10x Genomics Single Cell 3' Gene Expression and VDJ Assembly
celalp/clin_seqR
a shiny app to visualize clinical RNA-seq and compare to GTEX
celalp/ColabFold
Making Protein folding accessible to all via Google Colab!
celalp/comp_on_rnaseq
Compute ontarion rna seq lecture necessary files
celalp/crg2
Research pipeline for exploring clinically relevant genomic variants
celalp/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.
celalp/django-jazzmin
Jazzy theme for Django
celalp/ed_notes_scripts
celalp/masif_compare
implementation of masif pipeline for surface comparison
celalp/meningioma
Shiny app for meningioma data
celalp/ParallelFold
Modified version of Alphafold to divide CPU part (MSA and template searching) and GPU part. This can accelerate Alphafold when predicting multiple structures
celalp/rBLAST
Interface for the Basic Local Alignment Search Tool (BLAST) - R-Package
celalp/rfdiffusion-pipeline
Implementation of the RFdiffusion validation pipeline on the SickKids HPC cluster.
celalp/RNASeq_lecture
celalp/rnaseq_snake
basic snakefile for RNA-Seq in active development
celalp/RoseTTAFold
This package contains deep learning models and related scripts for RoseTTAFold
celalp/scPred
scPred package for cell type prediction from scRNA-seq data
celalp/seurat-wrappers
Community-provided extensions to Seurat
celalp/statistical_test_lecture
These are the lecture materials for CCM's statistical testing lecture
celalp/torque
torque scheduler to tinker with pipelines
celalp/xenon-docker-images
Dockerfiles for Xenon integration testing