Use DADA2 for sequence quality control. DADA2 is a pipeline for detecting and correcting (where possible) Illumina amplicon sequence data. As implemented in the q2-dada2 plugin, this quality control process will additionally filter any phiX reads (commonly present in marker gene Illumina sequence data) that are identified in the sequencing data, and will filter chimeric sequences.

Type: Galaxy

Creators: Debjyoti Ghosh, Helmholtz-Zentrum für Umweltforschung - UFZ

Submitter: WorkflowHub Bot

Created: 30th May 2024 at 11:35

dada2/main

Intergalactic Workflow Commission (IWC)

Tests Passing

dada2 amplicon analysis for paired end data

The workflow has three main outputs:

the sequence table (output of makeSequenceTable)
the taxonomy (output of assignTaxonomy)
the counts which allow to track the number of sequences in the samples through the steps (output of sequence counts)

Type: Galaxy

Creators: Matthias Bernt, UFZ Leipzig

Submitter: WorkflowHub Bot

Created: 12th Mar 2024 at 03:01

fluorescence-nuclei-segmentation-and-counting/main

Intergalactic Workflow Commission (IWC)

Tests Not available

This workflow performs segmentation and counting of cell nuclei using fluorescence microscopy images. The segmentation step is performed using Otsu thresholding (Otsu, 1979). The workflow is based on the tutorial: https://training.galaxyproject.org/training-material/topics/imaging/tutorials/imaging-introduction/tutorial.html

Type: Galaxy

Creator: Leonid Kostrykin

Submitter: WorkflowHub Bot

Created: 1st Mar 2024 at 03:01

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