BatchConvert
Work-in-progress

BatchConvert DOI:10.5281

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

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