README.md

Drosophila larval hemocyte single cell RNA-seq

Scripts for "Constitutive activation of cellular immunity underlies the evolution of resistance to infection in Drosophila"

Alexandre B Leitão*, Ramesh Arunkumar*, Jonathan P Day,Emma M Geldman,Ismaël Morin-Poulard, Michèle Crozatier, Francis M Jiggins https://doi.org/10.7554/eLife.59095

Description

Goal was to identify cell types in Drosophila larval hemocytes (blood cells) from 10X single cell RNA-sequencing using Seurat

List of scripts

singlecell_dmel_hemocytes.R - Single cell analysis

DoHeatmap2.R - Modified Seurat v3 DoHeatmap function for plotting

compare_datasets.R - Comparing three Drosophilia single cell hemocyte datasets

app.R - Shiny app for single cell gene expression browser

Overview of Seurat clustering pipeline

also in https://doi.org/10.7554/eLife.59095

Gene expression browser

https://arunkuma.shinyapps.io/singlecelldmel/