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- Pipeline for Sequential Analysis of MacroMolecules accessibilitY sequencing (SAMMY-seq) data, to analyze chromatin state.
- Amplicon sequencing analysis workflow using DADA2 and QIIME2
- Config files used to define parameters specific to compute environments at different Institutions
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
- Converts bam or cram files to fastq format and does quality control.
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
mag
PublicAssembly and binning of metagenomesproteinfold
PublicProtein 3D structure prediction pipelinetools
Public- A fully reproducible and state-of-the-art ancient DNA analysis pipeline
- circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
atacseq
Publiccrisprseq
PublicA pipeline for the analysis of CRISPR edited data. It allows the evaluation of the quality of gene editing experiments using targeted next generation sequencing (NGS) data (`targeted`) as well as the discovery of important genes from knock-out or activation CRISPR-Cas9 screens using CRISPR pooled DNA (`screening`).- Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.