Alex's Lemonade Stand Foundation's repositories
RNA-Seq-Exercises
Exercises for training scientists to perform some RNA-seq analyses.
refinebio-examples
Example workflows for refine.bio data
identifier-refinery
Tools and assets for easy gene identifier conversion
2020-may-training
Virtual training workshop for introducing pediatric cancer researchers to R, Tidyverse, and analysis of bulk RNA-seq data
2021-june-training
Childhood Cancer Data Lab - 2021 June Training Workshop
refinebio-design
Design files and resources for refine.bio
scRNA-seq_sandbox
Exploring some scRNA-seq methodologies, not a full-fledged pipeline ready for use
2020-july-training
CCDL Virtual Training Workshop: July 27-31, 2020
2020-june-training
CCDL Virtual Training Workshop: June 22-26, 2020
agilent-two-color
Analysis of Agilent two-color microarray data for refine.bio purposes
ccdatalab-gifs
Hosting gifs for ccdatalab.org
ccdl-hugo-template
Fork of https://github.com/digitalcraftsman/hugo-agency-theme
ccdl_header
Code to generate header image for Childhood Cancer Data Lab website
compendium-processing
A series of analyses related to refine.bio species compendia
long-read-rna-dockerfile
A dockerfile for running https://github.com/ENCODE-DCC/long-read-rna-pipeline
python-flask-demo
Experimenting with using python flask to serve an API for our next project.
refinebio-landing
Refine.bio landing page
responsible-data-sharing-figures
Contains original figures generated for https://www.nature.com/articles/s41576-020-0257-5
rna-seq-accession-management
Scripts and data for managing the large number of RNA-Seq accessions we want to use
scpcaData
Data files for testing scpcaTools
snakemake-k8s-demo
Kurt's attempt to get snakemake jobs running on kubernetes
training-txome-prep
Transcriptome index preparation for training-modules