meta-analysis of new and published human WAT single cell data

Teaching material for the single-cell course 2022

Genomic Identification of Significant Targets in Cancer (GISTIC), version 2

Illustration of parallel computing concepts such as Amdahl's law and presentation of scaling data

Variant Calling Pipeline Using GATK4 and Nextflow

Venn diagrams with directionality (concordance), optional display of items inside the figure, text Venn diagrams

📚 Biomedical knowledge mining using GOSemSim and clusterProfiler

😷 Disease Ontology Semantic and Enrichment analysis

Spatial alignment of single cell transcriptomic data.

MERFISH decoding software

Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.

Code used to generate figures for software tools review

Advanced steps of the OSCA book

R toolkit for single cell genomics

Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent genome-scale CRISPR-Cas9 knockout screens technology.

Hclust2 is a handy tool for plotting heat-maps with several useful options to produce high quality figures that can be used in publication.

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

small bioinformatics helpful codes

SortMeRNA: next-generation sequence filtering and alignment tool

Quality of RNA-Seq Toolset