Import spaceranger output and 10X spatial data
active 2023-11-14 → 2026-05-18 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 917 days from 2023-11-14 to 2026-05-18. Pushes: 96 total, peak 8 in a day. Pull requests: 2 total, peak 2 in a day. Issues: 29 total, peak 5 in a day. Comments: 34 total, peak 4 in a day. Stars: 2 total, peak 1 in a day.
- Pushes
- Pull requests
- Issues
- Comments
- Stars
Stars, PRs, issues and forks are under-captured in the later part of this window. GH Archive progressively stopped capturing non-push events during 2026 — −95% or worse by the end of the window. Every series here except Pushes fades for that reason, so a decline above reflects the archive, not this repository. Pushes stay reliable throughout, so read them, and the contributor counts derived from them, as the real signal. Data health has the measurements.
Top contributors
Pushes, PRs, issues, reviews and comments — stars and forks excluded, so this is contribution rather than popularity
| Contributor | Contributions | Pushes | PRs | Comments |
|---|---|---|---|---|
| LiNk-NY | 127 | 96 | 2 | 18 |
| estellad | 7 | 0 | 0 | 4 |
| HelenaLC | 5 | 0 | 0 | 3 |
| rcastelo | 3 | 0 | 0 | 1 |
| lxhuang7 | 3 | 0 | 0 | 1 |
| alosdiallo | 3 | 0 | 0 | 2 |
| lwaldron | 2 | 0 | 0 | 1 |
| boyiguo1 | 2 | 0 | 0 | 1 |
| cathalgking | 2 | 0 | 0 | 1 |
| ZheFrench | 2 | 0 | 0 | 0 |
| sopenaml | 1 | 0 | 0 | 0 |
| danhtruong | 1 | 0 | 0 | 0 |
| alikhuseynov | 1 | 0 | 0 | 1 |
| kieranrcampbell | 1 | 0 | 0 | 0 |
| drighelli | 1 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#21LiNk-NY2025-12-24 16:11spatialCoords names are emtpy with TENxVisiumHD and parquet files
- Issue#21ZheFrench2025-12-24 14:33spatialCoords names are emtpy with TENxVisiumHD and parquet files
- Issue#19LiNk-NY2025-12-08 22:26cell_id related sanity checks and add barcode_mappings.parquet content to colData()
- Issue comment#19HelenaLC2025-11-21 15:09cell_id related sanity checks and add barcode_mappings.parquet content to colData()
- Issue#11LiNk-NY2025-11-13 21:49Error in .find_convert_resources(spacerangerOut, processing, format, ...) : The 'outs' directory was not found.
- Issue comment#16LiNk-NY2025-11-13 21:46Support for segmented output
- Issue comment#18LiNk-NY2025-11-13 21:33Make outs optional but also check for it
- Issue#14LiNk-NY2025-10-16 13:09Remove mandatory /out directory when reading Visium
- Issue#16danhtruong2025-09-23 19:41Support for segmented output
- Issue comment#14estellad2025-09-05 13:29Remove mandatory /out directory when reading Visium
- Issue#14estellad2025-07-28 10:13Remove mandatory /out directory when reading Visium
- Issue#13kieranrcampbell2025-06-18 18:26sampleID not captured in TENxVisiumHD call
- Issue comment#12lxhuang72025-05-08 00:18Error in validObject(.Object) : invalid class “SingleCellExperiment” object: superclass "ExpData" not defined in the environment of the object's class
- Issue#12lxhuang72025-05-08 00:18Error in validObject(.Object) : invalid class “SingleCellExperiment” object: superclass "ExpData" not defined in the environment of the object's class
- Issue#12lxhuang72025-05-02 06:09Error in validObject(.Object) : invalid class “SingleCellExperiment” object: superclass "ExpData" not defined in the environment of the object's class
- Issue#11sopenaml2025-04-08 16:53Error in .find_convert_resources(spacerangerOut, processing, format, ...) : The 'outs' directory was not found.
- Issue comment#10LiNk-NY2025-04-04 18:17discrepancy in Visium HD colnames/barcodes
- Issue#8LiNk-NY2025-04-04 17:06Add support for Visium CytAssist image
- Issue#10HelenaLC2025-03-07 14:11discrepancy in Visium HD colnames/barcodes
- Issue comment#4LiNk-NY2025-01-29 16:40Suggestions on: Keep ensembl gene ID at read-in, automate non-unique gene renaming, add default rownames(), accept .h5 format :)
- Issue comment#4HelenaLC2025-01-29 16:33Suggestions on: Keep ensembl gene ID at read-in, automate non-unique gene renaming, add default rownames(), accept .h5 format :)
- Issue#4estellad2025-01-29 16:29Suggestions on: Keep ensembl gene ID at read-in, automate non-unique gene renaming, add default rownames(), accept .h5 format :)
- Issue comment#4estellad2025-01-29 16:26Suggestions on: Keep ensembl gene ID at read-in, automate non-unique gene renaming, add default rownames(), accept .h5 format :)
- Issue comment#9LiNk-NY2025-01-28 16:30`TENxVisiumHD`: `h5` not recognized when `x_feature_bc_matrix` directory is missing
- Issue#9LiNk-NY2025-01-28 16:30`TENxVisiumHD`: `h5` not recognized when `x_feature_bc_matrix` directory is missing
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 2 stars here means stars gained during the window, not the repo's star count.