BatchConvert

A command line tool for converting image data into either of the standard file formats OME-TIFF or OME-Zarr.

The tool wraps the dedicated file converters bfconvert and bioformats2raw to convert into OME-TIFF or OME-Zarr, respectively. The workflow management system NextFlow is used to perform conversion in parallel for batches of images.

The tool also wraps s3 and Aspera clients (go-mc and aspera-cli, respectively). ...

Type: Nextflow

Creator: Bugra Oezdemir

Submitter: bugra oezdemir

DOI: 10.48546/workflowhub.workflow.453.3

Created: 10th Apr 2023 at 11:40, Last updated: 5th Jul 2023 at 14:47

BAM to FASTQ + QC v1.0

Australian BioCommons, Galaxy Australia

Stable

BAM-to-FASTQ-QC

General recommendations for using BAM-to-FASTQ-QC

Please see the Genome assembly with hifiasm on Galaxy Australia guide.

Acknowledgements

The workflow & the doc_guidelines template used are supported by the Australian BioCommons via Bioplatforms Australia funding, the Australian Research Data Commons (https://doi.org/10.47486/PL105) ...

Type: Galaxy

Creator: Gareth Price

Submitter: Johan Gustafsson

DOI: 10.48546/workflowhub.workflow.220.2

Created: 21st Oct 2021 at 06:52, Last updated: 17th Oct 2022 at 03:51