Human iPSC-derived microglia carrying LRRK2-G2019 mutation show Parkinson's disease related transcriptional profile and functions

This repository contains the data and the code used in Ohtone Sohvi's project. A folder can contain the starting raw data in "data", the R scripts in order of execution (op1, op2 ..) and the "output" folder that contains the final processed data of each operation. "PD_bulk_analysis" contains the processing and analysis of the bulk RNA sequencing data "PD_bulk_fastq" contains the raw fastq sequences of the bulk RNA sequencing "PD_bulk_nfcore" contains the results of processing the fasta sequences with nfcore rnaseq workflow "PD_scRNA_analysis" contains the analysis of the snRNA sequencing dataset "PD_spatial" contains the raw data of the spatial sequencing, the assempbly of the spatial expression profiles starting from the DAPI images and the transcripts coordinates, the analysis performed on the data