dpcook

scrna_seq_workshop_2020

All data and notebook for my 2020 scRNA-seq analysis workshop

emt_dynamics

Scripts used for "Comparing transcriptional dynamics of the epithelial-mesenchymal transition"

thebaud_lung_BPD

R Notebooks for Hurskainen & Mizikova et al., 2020

code_snippets

fun_analysis

Exploration of various data sets

emp_programs

Code used in the manuscript "Transcriptional census of epithelial-mesenchymal plasticity in cancer"

tcga_breast_cancer

Analysis for collaboration with the Sabourin lab, looking at breast cancer subtypes and molecular markers

scRNASeq-estrogen

Analysis scripts for Vuong & Cook et al. (2018)

scrna_seq_workshop_2018

Analysis notebooks for the scRNA-Seq tutorials of the 2018 Stem Cell Network RNA-Seq workshops

spatial_benchmark

Code to reproduce analysis from Cook et al., bioRxiv, 2023

cv

Repo containing code for my CV

scrna_seq_workshop_2021

Notebooks used for my 2021 workshop on introductory scRNA-seq analysis

dpcook.github.io

logseq-hugo-template

ose_stemness

Analysis code associated with Carter & Cook et al., 2020

rna_seq_ovcan

Code for Cook et al., Communications Biology, 2023

scATAC_workshop_2023

Code for the Stem Cell Network scATAC-seq workshop (2023)

scrna_seq_workshop_2019

scrna_seq_workshop_2023

Code for Stem Cell Network scRNA-seq analysis workshop 2023

vector_models

vector graphics - feel free to use