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192 repositories
scrnaseq
PublicSingle-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detectioncreatepanelrefs
Publicmethylseq
PublicMethylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastairops
Publicairrflow
Publicpixelator
PublicPipeline to generate Proximity Network Assay data with Pixelator (Pixelgen Technologies AB)pacvar
Public- A pipeline for processing and analysis of light-sheet microscopy images.
stats
Publicmodules
Publicwebsite
Publicrnavar
Publicrnasplice
Publicsarek
PublicAnalysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencingsetup-nf-test
Publictools
Publictest-datasets
Publicmag
PublicAssembly and binning of metagenomesrangeland
PublicPipeline for remotely sensed imagery. The pipeline processes satellite imagery alongside auxiliary data in multiple steps to arrive at a set of trend files rela…raredisease
PublicCall and score variants from WGS/WES of rare disease patients.setup-nextflow
Publicviralmetagenome
Publicseqinspector
PublicDedicated 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…drugresponseeval
PublicPipeline for testing drug response prediction models in a statistically and biologically sound way.smrnaseq
Publicpairgenomealign
PublicPairwise genome comparison pipeline using the LAST software to align a list of query genomes to a target genome, and plot the resultsvariantprioritization
Publicstrict-syntax-health
Publicscdownstream
PublicA single cell transcriptomics pipeline for QC, integration and making the data presentableslackbot
Public
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