All Published Workflows
16 workflows that have been reviewed and published
Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.
snpArcher is a reproducible workflow optimized for nonmodel organisms and comparisons across datasets, built on the Snakema...
SMARTDADA2: High-Resolution Sequencing Quality Control Workflow
SMARTDADA2
Repo Directory
Installations and Dependencies
Workflow
To Run Program
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FastQC and MultiQC Workflow for BaseSpace Data Merging and Quality Control
This workflow performs fastqc on an input PROJECT directory downloaded from basespace. It will merge the FASTQ files between ...
MEDIPIPE: (cf)MeDIP-seq Data QC and Analysis Pipeline (v1.1.0)
The MEDIPIPE is designed for automated end-to-end quality control (QC) and analysis of (cf)MeDIP-seq data. The pipeline start...
QC and filtering of genome skims, followed by organelle assembly and/or genome analysis
nf-core/genomeskim is a bioinformatics best-practice analysis pipeline for QC and filtering of genome skims, followed by o...
De novo assembly pipeline for 10X linked-reads using Supernova
De novo assembly pipeline for 10X linked-reads. Due to the discontinuation of the primary data source (10X Chromium) for t...
Pre-processing of mass spectrometry-based metabolomics data with quantification and identification based on MS1 and MS2 data.
Pre-processing of mass spectrometry-based metabolomics data with quantification and identification based on MS1 and MS2 data...
Nanopore demultiplexing, QC and alignment pipeline
nfcore/nanoseq is a bioinformatics analysis pipeline for Nanopore DNA/RNA sequencing data that can be used to perform base...
Converts bam or cram files to fastq format and does quality control.
nf-core/bamtofastq is a bioinformatics best-practice analysis pipeline that converts (un)mapped .bam or .cram file...