SusiJo/test-datasets
Test data to be used for automated testing with the nf-core pipelines
Repositories
SusiJo/epitopeprediction
A bioinformatics best-practice analysis pipeline for epitope prediction and annotation
SusiJo/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
SusiJo/metapep
From metagenomes to epitopes and beyond
SusiJo/bamtofastq
SusiJo/shinyngs
Shiny apps for NGS etc based on reusable components created using Shiny modules
SusiJo/rnadeseq
Differential gene expression analysis and pathway analysis of RNAseq data
SusiJo/differentialabundance
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
SusiJo/sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
SusiJo/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
SusiJo/vcftomaf
SusiJo/nf-tools
Python package with helper tools for the nf-core community.
SusiJo/bioconda-recipes
Conda recipes for the bioconda channel.
SusiJo/anovaget-shiny
SusiJo/querynator
SusiJo/pipeline-docs
Docs for QBiC pipelines
SusiJo/multi-package-containers
Testing building mulled containers for multi-requirement tools.
SusiJo/mhcquant
Identify and quantify MHC eluted peptides from mass spectrometry raw data
SusiJo/master_project
Processing of RNA-Seq data with nf-core pipelines and machine learning
SusiJo/nf-core-clinvap
SusiJo/sradownloader
A pipeline to download raw data from SRA