Bioinformatics Services

We employ only curated nf-core pipelines

Genomics
Transcriptomics
Metagenomics
Epigenomics
Proteomics
immunoinformatics
Genomics
sarek
Analysis pipeline to detect germline or somatic variants from WGS/targeted sequencing
 
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nanoseq
Nanopore demultiplexing, QC and alignment pipeline
 
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bacass
Simple bacterial assembly and annotation pipeline
 
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eager
A fully reproducible and state of the art ancient DNA analysis pipeline
 
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Transcriptomics
rnaseq
RNA sequencing analysis pipeline with gene counts and quality control
 
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scrnaseq
A single-cell RNAseq pipeline for 10X genomics data
 
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rnafusion
RNA-seq analysis pipeline for detection gene-fusions
 
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smrnaseq
A small-RNA sequencing analysis pipeline
 
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Metagenomics
ampliseq
16S rRNA amplicon sequencing analysis workflow
 
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mag
Assembly and binning of metagenomes
 
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Epigenomics
methylseq
Methylation (Bisulfite-Sequencing) analysis pipeline
 
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chipseq
ChIP-seq peak-calling, QC and differential analysis pipeline.
 
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atacseq
ATAC-seq peak-calling, QC and differential analysis pipeline
 
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hic
Analysis of Chromosome Conformation Capture data (Hi-C)
 
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Proteomics
mhcquant
Identify and quantify peptides from mass spectrometry raw data
 
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proteomicslfq
Proteomics label-free quantification (LFQ) analysis pipeline
 
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Immunoinformatics
hlatyping
Precision HLA typing from next-generation sequencing data
 
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epitopeprediction
A bioinformatics best-practice analysis pipeline for epitope prediction and annotation
 
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bcellmagic
B cell repertoire sequencing analysis pipeline using the immcantation framework
 
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