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Merge pull request #71 from scverse/fix/table_formatting
fix table formatting
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‎datasets/README.md

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@@ -4,16 +4,17 @@ Here you can find all datasets necessary to run the example notebooks already co
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If you want to convert additional datasets check out the scripts available in the [spatialdata sandbox](https://github.com/giovp/spatialdata-sandbox).
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| Technology | Sample | File Size | Filename | download data | work with data remotely (**see note below**) | license |
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| :---------------------------------------- | :-------------------------------------------------------- | ------------------------------: | :-------------------------- | :---------------------------------------------------------------------------------------------- | :----------------------------------------------------------------------------------------- | :---------------------------------------------------------------------- | ----------------------------------- |
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| Visium | Breast Cancer [^2] | 1.5 GB | visium_associated_xenium_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/visium_associated_xenium_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/visium_associated_xenium_io.zarr/) | CCA |
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| Xenium | Breast Cancer [^2] | 2.8 GB | xenium_rep1_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/xenium_rep1_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/xenium_rep1_io.zarr/) | CCA |
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| Xenium | Breast Cancer [^2] | 3.7 GB | xenium_rep2_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/xenium_rep2_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/xenium_rep2_io.zarr/) | CCA |
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| CyCIF (MCMICRO output) | Small lung adenocarcinoma [^3] | 250 MB | mcmicro_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/mcmicro_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/mcmicro_io.zarr/) | CC BY-NC 4.0 DEED |
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| MERFISH | Mouse Brain [^4] | 50 MB | merfish | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/merfish.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/merfish.zarr/) | CC0 1.0 DEED |
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| MIBI-TOF | Colorectal carcinoma [^5] | 25 MB | mibitof | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/mibitof.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/mibitof.zarr/) | CC BY 4.0 DEED |
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| Imaging Mass Cytometry (Steinbock output) | 4 different cancers (SCCHN, BCC, NSCLC, CRC) [^6][^7][^8] | 820 MB | steinbock_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/steinbock_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/steinbock_io.zarr/) | CC BY 4.0 DEED |
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| <!-- | NanoString CosMx | Non-small cell lung cancer [^1] | 4.2 GB | cosmx_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/cosmx_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/cosmx_io.zarr/) | NanoString removed the dataset? --> |
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| Technology | Sample | File Size | Filename | download data | work with data remotely (**see note below**) | license |
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| :---------------------------------------- | :-------------------------------------------------------- | --------: | :-------------------------- | :---------------------------------------------------------------------------------------------- | :----------------------------------------------------------------------------------------- | :---------------- |
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| Visium | Breast Cancer [^2] | 1.5 GB | visium_associated_xenium_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/visium_associated_xenium_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/visium_associated_xenium_io.zarr/) | CCA |
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| Xenium | Breast Cancer [^2] | 2.8 GB | xenium_rep1_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/xenium_rep1_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/xenium_rep1_io.zarr/) | CCA |
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| Xenium | Breast Cancer [^2] | 3.7 GB | xenium_rep2_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/xenium_rep2_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/xenium_rep2_io.zarr/) | CCA |
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| CyCIF (MCMICRO output) | Small lung adenocarcinoma [^3] | 250 MB | mcmicro_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/mcmicro_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/mcmicro_io.zarr/) | CC BY-NC 4.0 DEED |
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| MERFISH | Mouse Brain [^4] | 50 MB | merfish | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/merfish.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/merfish.zarr/) | CC0 1.0 DEED |
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| MIBI-TOF | Colorectal carcinoma [^5] | 25 MB | mibitof | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/mibitof.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/mibitof.zarr/) | CC BY 4.0 DEED |
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| Imaging Mass Cytometry (Steinbock output) | 4 different cancers (SCCHN, BCC, NSCLC, CRC) [^6][^7][^8] | 820 MB | steinbock_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/steinbock_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/steinbock_io.zarr/) | CC BY 4.0 DEED |
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<!-- | NanoString CosMx | Non-small cell lung cancer [^1] | 4.2 GB | cosmx_io | [.zarr.zip](https://s3.embl.de/spatialdata/spatialdata-sandbox/cosmx_io.zip) | [S3](https://s3.embl.de/spatialdata/spatialdata-sandbox/cosmx_io.zarr/) | NanoString removed the dataset? -->
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**Note on S3 storage:** opening the S3 URLs in a web browser will not work, you need to treat the URLs as Zarr stores. For example if you append `.zgroup` to any of the URLs above you will be able to see that file.
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