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| Atributo | Single-Cell & Spatial Biology HarmonyBroad Institute / Harvard Medical School (Raychaudhuri Lab)Código Abierto💻 CPU | ＋ Añadir herramienta | ||||
|---|---|---|---|---|---|---|
| Category | Single-Cell & Spatial Biology | Single-cell, Spatial & Cytometry | Single-cell, Spatial & Cytometry | Single-cell, Spatial & Cytometry | Single-cell, Spatial & Cytometry | — |
| Subcategory | Single-Cell Batch Correction | Conventional or Statistical Baselines | Conventional or Statistical Baselines | Conventional or Statistical Baselines | Conventional or Statistical Baselines | — |
| Company | Broad Institute / Harvard Medical School (Raychaudhuri Lab) | Research / method authors | Research / method authors | Research / method authors | Research / method authors | — |
| Access mode | Open Source | Confirm distribution and exact release | Confirm distribution and exact release | Confirm distribution and exact release | Confirm distribution and exact release | — |
| Licence conditions | GPL-3.0 | NOT_INDEPENDENTLY_AUDITED | NOT_INDEPENDENTLY_AUDITED | NOT_INDEPENDENTLY_AUDITED | NOT_INDEPENDENTLY_AUDITED | — |
| Compute requirements | Standard CPU workstation | Version and data dependent | Version and data dependent | Version and data dependent | Version and data dependent | — |
| Biological application | Cross-tissue cell atlas integration, patient cohort harmonization, and multi-donor studies | No registrado | No registrado | No registrado | No registrado | — |
| Research workflow | Uncorrected PCA matrix -> Harmony batch alignment -> corrected embedding for clustering and UMAP | No registrado | No registrado | No registrado | No registrado | — |
| Evidence level | Peer-reviewed research (Nature Methods 2019) with thousands of citations | OFFICIAL_DOCUMENTATION | PEER_REVIEWED_METHOD_OR_CONFERENCE | PEER_REVIEWED_METHOD_OR_CONFERENCE | PEER_REVIEWED_METHOD_OR_CONFERENCE | — |
| Commercial eligibility | Permissive open source release | NOT_INDEPENDENTLY_AUDITED | NOT_INDEPENDENTLY_AUDITED | NOT_INDEPENDENTLY_AUDITED | NOT_INDEPENDENTLY_AUDITED | — |
| Price | Free Open Source | Verify access and licence | Verify access and licence | Verify access and licence | Verify access and licence | — |
| Availability ⓘ | Available on CRAN, PyPI, and GitHub | Method paper or official documentation | Method paper or official documentation | Method paper or official documentation | Method paper or official documentation | — |
| Features | Iterative maximum diversity clustering to align batch-specific distributions, Extremely fast execution scaling linearly with millions of cells, Available in both R and Python (harmonypy) packages, Integrated natively into Seurat and Scanpy pipelines | Azimuth (Seurat reference mapping) scientific method, Compatible single-cell expression matrix and named atlas reference, Anchor-based reference map and predicted cell labels | Baysor scientific method, Subcellular in-situ transcript positions and optional cell stain masks, Spatial transcript-informed cell boundaries | BBKNN scientific method, Single-cell latent-space representation and batch labels, Balanced neighbor graph for downstream analysis | CellRank scientific method, Single-cell trajectories, directional velocity or related transition kernels, Terminal state and fate probability hypotheses | — |
| Entry type | Software Library (R / Python) | Classical/statistical scientific method | Classical/statistical scientific method | Classical/statistical scientific method | Classical/statistical scientific method | — |
| AI role | Iterative Dimensionality Alignment | NON_AI_REFERENCE | NON_AI_STATISTICAL | NON_AI_STATISTICAL | NON_AI_STATISTICAL | — |
| Input data | No registrado | Compatible single-cell expression matrix and named atlas reference | Subcellular in-situ transcript positions and optional cell stain masks | Single-cell latent-space representation and batch labels | Single-cell trajectories, directional velocity or related transition kernels | — |
| Output data | No registrado | Anchor-based reference map and predicted cell labels | Spatial transcript-informed cell boundaries | Balanced neighbor graph for downstream analysis | Terminal state and fate probability hypotheses | — |
| Validation | No registrado | Published method scope; no independent BioAtlas execution or benchmark | Published method scope; no independent BioAtlas execution or benchmark | Published method scope; no independent BioAtlas execution or benchmark | Published method scope; no independent BioAtlas execution or benchmark | — |
| Type | Single-cell batch integration algorithm | No registrado | No registrado | No registrado | No registrado | — |
| Intended use | No registrado | No registrado | No registrado | No registrado | No registrado | — |
| Compatibility | No registrado | No registrado | No registrado | No registrado | No registrado | — |
| Manufacturer | Broad Institute of MIT and Harvard | No registrado | No registrado | No registrado | No registrado | — |
| Integration evidence | https://github.com/immunogenomics/harmony | No registrado | No registrado | No registrado | No registrado | — |
| Laboratory handoff | Produces clean cell clusters for cell-type sorting and downstream validation | No registrado | No registrado | No registrado | No registrado | — |