kieranrcampbell

clonealign

Bayesian inference of clone-specific gene expression estimates by integrating single-cell RNA-seq and single-cell DNA-seq data

ouija

Descriptive probabilistic marker gene approach to single-cell pseudotime inference

switchde

Inference of switch-like differential expression along single-cell trajectories

phenopath

Genomic trajectories (pseudotimes) in the presence of heterogenous environmental and genetic backgrounds

r-workshop-march-2019

R workshop on single cell genomics at BC Cancer March 2019

mfa

Probabilistic inference of single-cell bifurcations

autosmk

Autogenerate templates for Snakemake rules and R scripts

scrnaseq-digestion-paper

BC Cancer single-cell RNA-seq digestion method paper

awesome-single-cell

List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

camlab-website

Hugo website for camlab Toronto

cellassign

Automated, probabilistic assignment of cell types in scRNA-seq data

ouija-paper

Reproducible analysis for Ouija paper

snvworkflow

Apollo-11

Original Apollo 11 Guidance Computer (AGC) source code for the command and lunar modules.

basilisk

Python for Bioconductor

blog

clonealign-guide

clonealign-pipeline

A pipeline to process scRNA-seq (10X chromium) and scDNA-seq CNV data and infer clone-specific expression using clonealign

clonealign-snv-analysis

cloneutils

conferences

kieranrcampbell.github.io

latex-paper-template

Latex template for writing papers

old-cellassign

Probabilistic assignment of single-cell RNA-seq to known types

phenopath_revisions

scangen-website

Website for single-cell cancer genomics workshop at ISMB2018

SLMGAE

standR

Spatial transcriptomics analyses and decoding in R

stat-genomics-docker

Docker file for statistical genomics (single-cell focus)

tcga-gene-dosage

A Nextflow pipeline for identifying gene dosage effects from TCGA