Drosophila melanogaster late third instar larval testis scRNA-seq Analysis

The male larval gonad is a complex tissue made up of multiple cell types including germ cells and somatic cells. It is also a key developmental stage with the germline undergoing spermatogenesis. The diversity of cell types and transcriptional regulation of the developing gonad has only been broadly described. In order to get single-cell resolution, we profiled late third instar larval testes of a reference Drosophila melanogaster genotype, w[1118] using single-cell RNA-Seq (scRNA-Seq). We identified and annotated 9 cell types including 4 stages of the germ cell lineage, and provide transcriptional profiles for each cell type.

This is all of the code used to analyze both scRNA-seq and Bulk RNA-seq from Drosophila third instar larval testis.

All data can be found here:
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125947
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE115478