Workflows
What is a Workflow?Filters
This workflow performs the scaffolding of a genome assembly using HiC data with YAHS. Can be used on any assembly with Hi-C data, and the assembly in the gfa format. You can generate a gfa from a fasta using the gfastat tool. Part of the VGP set of workflows, it is meant to be run after the contigging (workflows 3,4, or 5), optional purging step (Workflow 6 or 6b), and an optionnal scaffolding with Bionano data (Workflow 7). This workflow includes QC with Assembly statistics, Busco, and Hi-C maps. ...
Generate mitochondrial assembly based on PacBio HiFi reads. Part of the VGP suite, it can be run at any time independently of the other workflows. This workflow uses MitoHiFi and a mitochondrial reference to assemble the mitochondrial genome from PacBio reads. You do not need to provide the reference yourself, only the Latin name of the species.
Gene_fetch
This tool fetches gene sequences from NCBI databases based on taxonomy IDs (taxids) or taxonomic information. It can retrieve both protein and nucleotide sequences for various genes, including protein-coding genes (e.g., cox1, cytb, rbcl, matk) and rRNA genes (e.g., 16S, 18S).
Feature highlight
- Fetch protein and/or nucleotide sequences from NCBI GenBank database.
- Handles both direct nucleotide sequences and protein-linked nucleotide searches (CDS extraction includes fallback ...
Annual percentage Change for population in Germany (1950 - 2025)
This workflow run was executed on Galaxy (Workflow Rerun Information)
Workflow: Climate Stripes
Execution Status: scheduled
Executed: 2025-05-27 14:14:07.240149
Workflow Inputs
Formal Input Definitions
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Germany-Population-Annual--Change-2025-05-27-15-17.csv (File)
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Column name to use for plotting (Text)
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Plot Title (Text)
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nxsplit (Integer)
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Description: Number of values per intervals
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EOSC4Cancer_D2.2
Galaxy workflow used for EOSC4Cancer D2.2 - Analytical methods for data extraction, processing and sharing using biomedical images - demonstrator
Link to deliverable report on Zenodo:
Type: Galaxy
Creators: Jeanne Chèneby, Hakim Achterberg, Dario Longo, Francesco Gammaraccio, Robin Navest
Submitter: Robin Navest
The Galaxy workflow for clonal population analysis was designed to process patient mutation data extracted from cBioPortal, specifically using the TracerX study as an example. This workflow, part of the deliverable D3.2 for EOSC4Cancer developed at UiO, begins with a raw patient mutation table from cBioPortal, where modifications and formatting occur to prepare the data for analysis. Some data, notably the copy number alterations (referred to as "All_CN"), were manually uploaded to Galaxy to ...
This is the workflow for thesis: A FAIR Data Pipeline for Ecosystem Research, with Machine Learning and Marine Acoustic Data (Jiamian He)