Protocol to decipher complex spatial transcriptomics data using STMiner
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| Format: | Recurso digital |
| Langue: | anglais |
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Zenodo
2025
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| _version_ | 1866902184497512448 |
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| author | Sun, Peisen |
| author_facet | Sun, Peisen |
| contents | <p><span lang="EN-US">Analysis complex spatial transcriptomics (ST) data are struggling for uneven sampling, sparsity and ambiguous tissue boundaries. Here, we present a protocol for deciphering complex ST data using STMiner. We describe the steps for installing STMiner, loading ST data into STMiner, identifying spatially variable genes, determining gene sets associated with the structure of interest, and obtaining spatial expression patterns. This protocol can be employed to decipher complex ST data across varying resolutions and platforms, without the need for additional reference data.</span></p> |
| format | Recurso digital |
| id | zenodo_https___doi_org_10_5281_zenodo_15314440 |
| institution | Zenodo |
| language | eng |
| publishDate | 2025 |
| publisher | Zenodo |
| record_format | zenodo |
| spellingShingle | Protocol to decipher complex spatial transcriptomics data using STMiner Sun, Peisen spatial transcriptomics python STMiner <p><span lang="EN-US">Analysis complex spatial transcriptomics (ST) data are struggling for uneven sampling, sparsity and ambiguous tissue boundaries. Here, we present a protocol for deciphering complex ST data using STMiner. We describe the steps for installing STMiner, loading ST data into STMiner, identifying spatially variable genes, determining gene sets associated with the structure of interest, and obtaining spatial expression patterns. This protocol can be employed to decipher complex ST data across varying resolutions and platforms, without the need for additional reference data.</span></p> |
| title | Protocol to decipher complex spatial transcriptomics data using STMiner |
| topic | spatial transcriptomics python STMiner |
| url | https://doi.org/10.5281/zenodo.15314440 |