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raredisease
PublicCall and score variants from WGS/WES of rare disease patients.- Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
funcscan
Publicreferences-assets
Publicmodules
Publicsammyseq
PublicPipeline for Sequential Analysis of MacroMolecules accessibilitY sequencing (SAMMY-seq) data, to analyze chromatin state.configs
PublicConfig files used to define parameters specific to compute environments at different Institutionsproteinfamilies
PublicGeneration and update of protein families- A pipeline for de novo transcriptome assembly of paired-end short reads from bulk RNA-seq
- A single cell transcriptomics pipeline for QC, integration and making the data presentable
ops
Publicmcmicro
PublicAn end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.stats
Publicreferences
Public- Assembly and binning of metagenomes
createtaxdb
PublicParallelised and automated construction of metagenomic classifier databases of different toolsrnafusion
Publicpixelator
PublicPipeline to generate Molecular Pixelation data with Pixelator (Pixelgen Technologies AB)logos
Publiconcoanalyser
Publicfastquorum
Publicfastqrepair
PublicA pipeline that can be used to recover corrupted FASTQ.gz files, drop or fix uncompliant reads, remove unpaired reads, and settles reads that became disorderedscnanoseq
PublicSingle-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomicskmermaid
Publicrnavar
Public