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188 repositories
- Config files used to define parameters specific to compute environments at different Institutions
- Dedicated QC-only pipeline for sequencing data. The pipeline will run a (potentially large) set of QC tools and can output global and group specific Multiqc rep…
website
Public- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
spatialvi
PublicPipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.- This pipeline is dedicated to identifying the most stable genes within a single or multiple expression dataset(s). This is particularly useful for identifying t…
tools
Publicdemultiplex
Publicampliseq
PublicAmplicon sequencing analysis workflow using DADA2 and QIIME2ops
Public- A fully reproducible and state-of-the-art ancient DNA analysis pipeline
test-datasets
Publicvariantbenchmarking
PublicPipeline to evaluate and validate the accuracy of variant calling methods in genomic researchcreatepanelrefs
Publicproteinfold
PublicProtein 3D structure prediction pipelinemagmap
Publicstrict-syntax-health
Publicscdownstream
PublicA single cell transcriptomics pipeline for QC, integration and making the data presentablerarevariantburden
PublicPipeline for performing consistent summary count based rare variant burden test, which is useful when we only have sequenced cases data. For example, we can com…diseasemodulediscovery
PublicA pipeline for network-based disease module identification.bacass
PublicSimple bacterial assembly and annotation pipelinesopa
PublicNextflow version of Sopa - spatial omics pipeline and analysiscallingcards
Publicrnavar
Publicdrop
Public
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