Tutorials - biostatsquid.com

MSigDB gene sets: easy msigdbr in R

by Biostatsquid | Nov 15, 2025 | Learning, RNAseq, scRNAseq, scRNAseq, Tutorials

MSigDB gene sets: easy msigdbr in R MSigDB gene sets: easy msigdbr in R Welcome to this comprehensive guide on MSigDB (Molecular Signatures Database) and the msigdbr R package! If you’ve ever wondered which gene sets to use for your pathway enrichment analysis, or...

MA plots with ggplot: easy R tutorial

by Biostatsquid | Nov 6, 2025 | Statistics in R, Tutorials, Visualisation

MA plots with ggplot: easy R tutorial MA plots with ggplot: easy R tutorial In this blogpost, we will learn how to create our own MA plot with ggplot, following an easy step-by-step tutorial in R. If you haven’t yet, check out my other blogpost where I go over the...

Heatmaps with ComplexHeatmap() R tutorial

by Biostatsquid | Sep 21, 2025 | scRNAseq, Tutorials, Visualisation

ComplexHeatmap Tutorial: create publication-ready heatmaps in R ComplexHeatmap Tutorial: create publication-ready heatmaps in R In this easy step-by-step tutorial we will learn how to create and customise a heatmap with R package ComplexHeatmap. ComplexHeatmap is one...

Pathway Enrichment Analysis with clusterProfiler (old version)

by Biostatsquid | Jul 15, 2025 | RNAseq, scRNAseq, Tutorials, Uncategorized

Hey! You’re looking at an old post. Newer version here: clusterProfiler tutorial in R R TUTORIAL: Perform pathway enrichment analysis with clusterProfiler() in R Table of contents 5 Before you start 5 Step-by-step clusterProfiler tutorial 9 Step 0: Set up your...

Easy gene set enrichment analysis with fgsea (old version)

by Biostatsquid | Jul 15, 2025 | scRNAseq, Tutorials

Hey! You’re looking at an old post. Newer version here: fgsea tutorial in R A step-by-step R tutorial on performing Gene Set Enrichment Analysis with R package fgsea In this tutorial you will learn how to conduct Gene Set Enrichment Analysis (GSEA) using...

Comparing multiple groups: Kruskal-Wallis test in R

by Biostatsquid | Jun 6, 2025 | Learning, Statistics, Statistics in R, Tutorials

When working with biological data, we often want to compare measurements across multiple groups. However, these measurements aren’t always normally distributed. In such cases, non-parametric methods like the Kruskal-Wallis test and Dunn’s post-hoc test are ideal...