spatialvi

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Visium HD support

7

This PR adds support for Visium HD slides. - [ ] Update metro map with Visium HD

cavenel

Copying `sdata_processed.zarr` to S3 yields java.nio.file.NoSuchFileException

8

### Description of the bug Hello, I'm running into a very weird issue with Nextflow + Tower + SpatialVi when publishing the `sdata_processed.zarr` to S3. I tested with Nextflow 24.04.3...

R3myG

Add compatibility for Visium HD

2

### Description of feature Since Visium HD is still Visium, it'd be nice if the pipeline can support it.

fasterius

Fixes issue #124 , checking if for a non-null/"file" scheme before attempting to resolve symlinks to avoid breaking cloud storage paths as supported in PR #122. I manually tested (using...

nathanweeks

fastq_dir cannot be a symlink

1

### Description of the bug If a fastq_dir specified in the `--input` sample sheet is a symbolic link to a directory instead of a directory, then a "No `fastq_dir` specified...

nathanweeks

Input file name collision

2

### Description of the bug Hello, I am running several samples using spatialvi in different directories and they are all throwing the same error. Hope you can help: I run...

vella12-osu

### Description of feature The metro map needs updating with all the latest changes.

fasterius