convert/from_spatialdata_to_h5mu
Description
Reads in the Tables field stored in a SpatialData object and converts it to an h5mu file.
Arguments
Name | Type & Properties | Description |
|---|---|---|
--input -i | file required | Input zarr folder where the SpatialData object is stored. |
--modality | string | |
--output -o | file output | The output h5mu file. |
--output_compression | string |
Run this component
Run the following command to execute this component with Nextflow:
cat > params.yaml <<'EOM'
modality: [ "rna" ]
output: "$id.$key.output.h5mu"
id: "run"
publish_dir: "output/"
EOM
nextflow run https://packages.viash-hub.com/vsh/openpipeline_spatial.git \
-revision v0.6.0 \
-main-script target/nextflow/convert/from_spatialdata_to_h5mu/main.nf \
-params-file params.yaml Relationships
Used by
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Current component
convert/from_spatialdata_to_h5muopenpipeline_spatial v0.6.0
Uses
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