This repository contains analysis code for the Within Subject project carried out by researchers at the Konopka Lab, UTSW.
If you use anything in this repository please cite the following publication:
Pre-print URL: https://www.biorxiv.org/content/10.1101/853531v1
| directory | contents | code |
|---|---|---|
processing_qc |
Output data from initial processing and quality check. | 01_Data_processing_QC.R |
processing_memory |
Output data from memory (SME) analysis. | 02_SME_Analysis.R |
processing_math |
Output data from math task analysis. | 03_MATH_Analysis.R |
processing_mri |
Output data from MRI (thickness) analysis. | 04_MRI_Analysis.R |
processing_behavior |
Output data from behavioral analysis. | 05_BEHAVIORAL_Analysis.R |
final_visualizations |
Some visualization and data integration. | 06_Visualizations.R |
enrichments_SME |
Enrichment analysis for SME genes. | 07_Cross-Enrich_SME.R |
processing_wgcna |
Output data from the consensus WGCNA analysis. | 08_consWGCNA.R |
enrichments_wgcna |
Enrichment analysis for co-expression modules. | 09_Enrichments_consWGCNA.R |
magma_wgcna |
GWAS enrichment for the co-expression modules. | 10_consWGCNA_Magma.sh |
processing_scRNAseq |
Output data from single-nuclei RNA-seq analysis. | 11_SingleCell_Analysis.R |
supp_tables |
Databases and supplementary tables. | 12_Database.R |
networking |
Output data from PPI netowrk analysis. | 13_PPI_Networks.R |
supp_analysis |
Supplementary data and analysis. | |
Shiny_App |
Shiny app for SME - Gene Scatterplot. |
]