JaneliaSciComp/bioformats2raw

module

Convert any Bioformats-compatible image to OME-Zarr format

image formats converter OME-Zarr

Module Information

Repository: https://github.com/JaneliaSciComp/nextflow-modules/tree/main/modules/janelia/bioformats2raw
Source: Janelia
Organization: JaneliaSciComp
Authors: @krokicki

Name	Type	Description
ch_meta	tuple	Channel of tuples containing a meta map, the input image, an output path where the OME-Zarr should be created, and a memo directory where temporary files will be saved. Structure: [ val(meta), path(input_image), val(output_path), val(memo_directory) ]

Name	Type	Description
params	tuple	Same as the input tuple but replaces output paths with the OME-Zarr that was created. Structure: [ val(meta), path(input_image), val(zarr_output_path) ]
versions	file	File containing software versions

Include this module in your Nextflow pipeline:

include { BIOFORMATS2RAW } from 'https://github.com/JaneliaSciComp/nextflow-modules/tree/main/modules/janelia/bioformats2raw'