R/bash code for lab work
In DepMap folder, there are R codes for analyzing cell dependency data from DepMap and cellign.
Example:
X-axis is the CRISPR index (cell dependency score) and Y-axis is the gene (BMI1) expression in different cell lines.
In scRNA-seq folder, there are code for single-cell RNA-seq clustering using Seurat, pseudotime analysis using monocle3 and code to plot modified violin plot.
Example:
In bash script folder, there are bash script examples for HPC and slurm for ChIP-seq processing, peak calling and RNA-seq processing using kallisto.