asd_analysis
General Analysis:
Workflow for ASD Data <- Main document, all early approaches, plots messy script, but good parts
Plot MAST output against DESeq <- Plots of result comparison
new_clustering_Pseudobulks_GO_SFARI.R <- new clustering, DESeq Analysis, GO Analysis, SFARI comparison, output comparison plot for DESEQ and MAST decently tidy
new_clustering <- Old Version of new_clustering_Pseudobulks_GO_SFARI.R
MAST:
ASD_Permutation <- Tutorial for Permutations, Problems with MAST very clean and tidy script
Permutations Workflow <– First Draft of ASD_Permutation
Workflow for MAST::zlm <- R version of Permutation Workflow
DESeq:
Simon_DESeq <- Tutorial for Pseudobulks and DESeq also very clean
Formula Variation <- Seeing if including different confounding variables makes a difference for the results of DESeq