Devika Agarwal's repositories
Human_iPSC_DaNS
Rmarkdown scripts for analysing bulk and single cell iPSC DaNS and microglial CoCultures
Multiome_PBMC_3k_ATAC_RNA
Multiome analysis of 10x Genemics of PBMC 3K single cell ATAC Seq + RNAseq analysis
SN_Cortex_cell_atlas
Rmarkdown scripts for adult human postmortem SN & Cortex cell atlas project.
10x_Human_Cerebellum_Organoid
Gene ontology and external dataset comparison scripts for 10x GEX data for human cerebellum organoids
cgat_cellranger
CGAT pipeline to run cellranger count
Conda_Workshops
This repository contains documentation relating to how to use conda for installing bioinformatic software, creating new enviroments when you have conflicting dependences and how to use conda for reproducible research
scenic
Pipeline to run SCENIC analysis (pySCENIC)
SN_Atlas
SN_Atlas_analyses
scFlyTools
Tools that help analyse high-throughput single-cell transcriptome data, optimised and tested in Drosophila scRNAseq data.
single-cell
Single cell pipelines
snakemake_alevin_10x
snakemake repository for alevin quantification of single cell RNAseq data
VoxHunt
VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps