Repository for Short Course: Deep Learning in Omics

dN/dS methods to quantify selection in cancer and somatic evolution

Awesome Docker Compose samples

Open workflow definitions for genomic analysis from MGI at WUSM.

A package to help convert different single-cell data formats to each other

Microsatellite instability (MSI) detection for tumor only data.

Examples of single-cell genomic analysis accelerated with RAPIDS

scRNAseq analysis notes from Ming Tang

Theme ggplot2, lattice, and base graphics based on a few simple settings.

Detect doublets in single-cell RNA-seq data

software to detect doublets

Updated SignatureAnalyzer-GPU with mutational spectra & RNA expression compatibility.

Wrapper workflow and Decider for RSEM tool (transcription analysis for RNAseq)

Cloud-based scalable and efficient single-cell genomics workflows

DESeq2 or edgeR

This is the repository that contains the analysis of the lung adenocarcinoma single cell dataset

Predict mutated T-cell epitopes from sequencing data

Splice junction analysis and filtering from BAM files

The Pharmacogenomic Clinical Annotation Tool

material for teaching reproducible science with R and RStudio

Combination matrix axis for 'ggplot2' to create 'UpSet' plots

Course materials for "Variants Annotate and Phenotype Analysis"

Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem

Sargasso disambiguates mixed-species high-throughput sequencing data.

A Shiny web app for mapping datasets using Seurat v4

Data Wrangling and Processing for Genomics

Generate reproducible html5 slides from R markdown