[Upstream sync] inoue0426/awesome-computational-biology (github) — 0 added, 5 modified #91
+430
-69
@@ -2,9 +2,9 @@
|
||||
title: "Resources"
|
||||
task: ""
|
||||
lineage_type: import
|
||||
upstream_source: https://github.com/inoue0426/awesome-computational-biology/blob/7a064bf0/docs/data/resources.json
|
||||
upstream_sha: 7a064bf0
|
||||
imported_at: 2026-08-08
|
||||
upstream_source: https://github.com/inoue0426/awesome-computational-biology/blob/c6f07d90/docs/data/resources.json
|
||||
upstream_sha: c6f07d90
|
||||
imported_at: 2026-08-31
|
||||
prompt_class: catalogue
|
||||
upstream_changes: accepted
|
||||
author: upstream
|
||||
@@ -899,10 +899,20 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Genomics"
|
||||
"single-cell-rna-seq",
|
||||
"genomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene"
|
||||
],
|
||||
"documentation": "https://www.10xgenomics.com/resources/datasets",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://www.10xgenomics.com/resources/datasets"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "alphafold_protein_structure_database",
|
||||
@@ -915,10 +925,20 @@ validated: false
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||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Protein"
|
||||
"molecular-structure",
|
||||
"protein-sequence"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"protein"
|
||||
],
|
||||
"documentation": "https://alphafold.ebi.ac.uk/api-docs",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://alphafold.ebi.ac.uk/",
|
||||
"https://alphafold.ebi.ac.uk/api-docs"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "bindingdb",
|
||||
@@ -932,11 +952,20 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Protein",
|
||||
"Small Molecule"
|
||||
"chemical-structure",
|
||||
"molecular-structure"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"molecule",
|
||||
"protein"
|
||||
],
|
||||
"documentation": "https://www.bindingdb.org/rwd/bind/index.jsp",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://www.bindingdb.org/rwd/bind/index.jsp"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "biocyc",
|
||||
@@ -949,10 +978,20 @@ validated: false
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||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Pathway"
|
||||
"genomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"gene",
|
||||
"pathway",
|
||||
"organism"
|
||||
],
|
||||
"documentation": "https://biocyc.org/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://biocyc.org/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "biogrid",
|
||||
@@ -969,7 +1008,16 @@ validated: false
|
||||
"Protein"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"gene",
|
||||
"protein"
|
||||
],
|
||||
"documentation": "https://thebiogrid.org/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://thebiogrid.org/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "cancer_cell_line_encyclopedia",
|
||||
@@ -983,11 +1031,22 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Gene Expression",
|
||||
"Small Molecule"
|
||||
"genomics",
|
||||
"transcriptomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene",
|
||||
"disease",
|
||||
"drug"
|
||||
],
|
||||
"documentation": "https://sites.broadinstitute.org/ccle/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://sites.broadinstitute.org/ccle/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "catalogue_of_somatic_mutations_in_cancer_cosmic",
|
||||
@@ -1000,10 +1059,20 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Genomics"
|
||||
"genomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"disease",
|
||||
"gene",
|
||||
"variant"
|
||||
],
|
||||
"documentation": "https://cancer.sanger.ac.uk/cosmic",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://cancer.sanger.ac.uk/cosmic"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "cath_database",
|
||||
@@ -1016,10 +1085,19 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Protein"
|
||||
"molecular-structure",
|
||||
"protein-sequence"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"protein"
|
||||
],
|
||||
"documentation": "https://www.cathdb.info/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://www.cathdb.info/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "cbioportal",
|
||||
@@ -1032,10 +1110,23 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Genomics"
|
||||
"genomics",
|
||||
"clinical"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"disease",
|
||||
"gene",
|
||||
"variant"
|
||||
],
|
||||
"github": "https://github.com/cBioPortal/cbioportal",
|
||||
"documentation": "https://www.cbioportal.org/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://www.cbioportal.org/",
|
||||
"https://github.com/cBioPortal/cbioportal"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "cellminer_cross_database_cellminercdb",
|
||||
@@ -1092,10 +1183,20 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Small Molecule"
|
||||
"chemical-structure"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"compound",
|
||||
"molecule",
|
||||
"protein"
|
||||
],
|
||||
"documentation": "https://www.ebi.ac.uk/chembl/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://www.ebi.ac.uk/chembl/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "chemspider",
|
||||
@@ -1124,10 +1225,19 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Clinical"
|
||||
"clinical"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"disease",
|
||||
"drug"
|
||||
],
|
||||
"documentation": "https://clinicaltrials.gov/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://clinicaltrials.gov/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "comparative_toxicogenomics_database",
|
||||
@@ -1141,11 +1251,20 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Gene",
|
||||
"Small Molecule"
|
||||
"knowledge-graph"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"compound",
|
||||
"gene",
|
||||
"disease"
|
||||
],
|
||||
"documentation": "https://ctdbase.org/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://ctdbase.org/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "critical_assessment_of_structure_prediction_casp",
|
||||
@@ -1174,10 +1293,21 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Single Cell"
|
||||
"single-cell-rna-seq",
|
||||
"transcriptomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene",
|
||||
"tissue"
|
||||
],
|
||||
"documentation": "https://cellxgene.cziscience.com/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://cellxgene.cziscience.com/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "davis_kinase_inhibitors_db",
|
||||
@@ -1208,10 +1338,21 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Genomics"
|
||||
"genomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene",
|
||||
"disease",
|
||||
"drug"
|
||||
],
|
||||
"documentation": "https://depmap.org/portal/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://depmap.org/portal/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "dgidb",
|
||||
@@ -1225,11 +1366,19 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Gene",
|
||||
"Small Molecule"
|
||||
"knowledge-graph"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"drug",
|
||||
"gene"
|
||||
],
|
||||
"documentation": "https://www.dgidb.org/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://www.dgidb.org/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "diseases",
|
||||
@@ -1292,10 +1441,21 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Knowledge Graph"
|
||||
"knowledge-graph"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"drug",
|
||||
"disease",
|
||||
"gene",
|
||||
"pathway"
|
||||
],
|
||||
"github": "https://github.com/SuLab/DrugMechDB",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/SuLab/DrugMechDB"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "drug_repurposing_hub",
|
||||
@@ -1308,10 +1468,20 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Small Molecule"
|
||||
"chemical-structure"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"drug",
|
||||
"protein",
|
||||
"disease"
|
||||
],
|
||||
"documentation": "https://repo-hub.broadinstitute.org/repurposing",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://repo-hub.broadinstitute.org/repurposing"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "drugbank",
|
||||
@@ -1349,10 +1519,20 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Small Molecule"
|
||||
"chemical-structure"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"drug",
|
||||
"protein",
|
||||
"disease"
|
||||
],
|
||||
"documentation": "https://drugcentral.org/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://drugcentral.org/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "drugtargetcommons",
|
||||
@@ -1365,10 +1545,19 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Small Molecule"
|
||||
"chemical-structure"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"drug",
|
||||
"protein"
|
||||
],
|
||||
"documentation": "https://drugtargetcommons.fimm.fi/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://drugtargetcommons.fimm.fi/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "encode",
|
||||
@@ -1936,6 +2125,22 @@ validated: false
|
||||
"organism": [],
|
||||
"api": false
|
||||
},
|
||||
{
|
||||
"id": "oncokb",
|
||||
"name": "OncoKB",
|
||||
"type": "database",
|
||||
"url": "https://www.oncokb.org/",
|
||||
"description": "Precision oncology knowledge base of cancer genes, variants, and therapeutic implications.",
|
||||
"tags": [
|
||||
"genome"
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Genomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
},
|
||||
{
|
||||
"id": "open_targets_platform",
|
||||
"name": "Open Targets Platform",
|
||||
@@ -2383,10 +2588,18 @@ validated: false
|
||||
],
|
||||
"tasks": [],
|
||||
"modalities": [
|
||||
"Protein"
|
||||
"protein-sequence"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"protein"
|
||||
],
|
||||
"documentation": "https://www.uniprot.org/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://www.uniprot.org/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "uniref",
|
||||
@@ -3995,7 +4208,7 @@ validated: false
|
||||
"name": "MIDAS",
|
||||
"type": "model",
|
||||
"url": "https://github.com/labomics/midas",
|
||||
"description": "Mosaic integration and differential accessibility model for single-cell multi-omics data that handles arbitrary missing-modality combinations across transcriptomics, chromatin accessibility, and proteomics.",
|
||||
"description": "Mosaic integration and differential accessibility model for single-cell multi-omics that handles arbitrary missing-modality combinations across transcriptomics, chromatin accessibility, and proteomics.",
|
||||
"tags": [
|
||||
"foundation-models",
|
||||
"multi-omics-foundation-models",
|
||||
@@ -4266,6 +4479,24 @@ validated: false
|
||||
"organism": [],
|
||||
"api": false
|
||||
},
|
||||
{
|
||||
"id": "nbbayeslm",
|
||||
"name": "NbBayesLM",
|
||||
"type": "model",
|
||||
"url": "https://github.com/FairuzShadmaniShishir/NbBayesLM",
|
||||
"description": "Bayesian neural network integrating protein language model embeddings and physicochemical features to predict nanobody thermostability with uncertainty estimates. [Paper](https://www.frontiersin.org/journals/bioinformatics/articles/10.3389/fbinf.2026.1832968/full)",
|
||||
"tags": [
|
||||
"protein-property-prediction"
|
||||
],
|
||||
"tasks": [
|
||||
"Protein Property Prediction"
|
||||
],
|
||||
"modalities": [
|
||||
"Protein"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
},
|
||||
{
|
||||
"id": "neodti",
|
||||
"name": "NeoDTI",
|
||||
@@ -5444,9 +5675,23 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"dna-sequence",
|
||||
"protein-sequence"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"gene",
|
||||
"protein"
|
||||
],
|
||||
"github": "https://github.com/biopython/biopython",
|
||||
"documentation": "https://biopython.org/wiki/Documentation",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/biopython/biopython",
|
||||
"https://biopython.org/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "casper",
|
||||
@@ -5476,9 +5721,22 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"spatial-transcriptomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"tissue"
|
||||
],
|
||||
"github": "https://github.com/CSOgroup/cellcharter",
|
||||
"documentation": "https://cellcharter.readthedocs.io/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/CSOgroup/cellcharter",
|
||||
"https://cellcharter.readthedocs.io/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "cellchat",
|
||||
@@ -5492,9 +5750,20 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"single-cell-rna-seq"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene"
|
||||
],
|
||||
"github": "https://github.com/sqjin/CellChat",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/sqjin/CellChat"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "celltypist",
|
||||
@@ -5506,11 +5775,24 @@ validated: false
|
||||
"preprocessing-tools"
|
||||
],
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
"cell-type-annotation"
|
||||
],
|
||||
"modalities": [
|
||||
"single-cell-rna-seq"
|
||||
],
|
||||
"modalities": [],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene"
|
||||
],
|
||||
"github": "https://github.com/Teichlab/celltypist",
|
||||
"documentation": "https://celltypist.readthedocs.io/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/Teichlab/celltypist",
|
||||
"https://celltypist.readthedocs.io/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "chatspatial",
|
||||
@@ -5572,16 +5854,30 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"chemical-structure",
|
||||
"molecular-structure"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"molecule",
|
||||
"protein"
|
||||
],
|
||||
"github": "https://github.com/deepchem/deepchem",
|
||||
"documentation": "https://deepchem.readthedocs.io/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/deepchem/deepchem",
|
||||
"https://deepchem.readthedocs.io/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "deeptalk",
|
||||
"name": "DeepTalk",
|
||||
"type": "toolkit",
|
||||
"url": "https://github.com/JiangBioLab/DeepTalk",
|
||||
"description": "Graph attention network for deciphering cell-cell communication from spatial transcriptomics data.",
|
||||
"description": "Graph attention network for deciphering cell-cell communication from spatial transcriptomics.",
|
||||
"tags": [
|
||||
"preprocessing-tools"
|
||||
],
|
||||
@@ -5796,9 +6092,21 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"chemical-structure"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"molecule"
|
||||
],
|
||||
"github": "https://github.com/rdkit/rdkit",
|
||||
"documentation": "https://www.rdkit.org/docs/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/rdkit/rdkit",
|
||||
"https://www.rdkit.org/docs/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "scanpy",
|
||||
@@ -5812,9 +6120,22 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"single-cell-rna-seq"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene"
|
||||
],
|
||||
"github": "https://github.com/scverse/scanpy",
|
||||
"documentation": "https://scanpy.readthedocs.io/en/stable/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/scverse/scanpy",
|
||||
"https://scanpy.readthedocs.io/en/stable/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "scenic",
|
||||
@@ -5876,9 +6197,23 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"single-cell-rna-seq",
|
||||
"multi-omics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene"
|
||||
],
|
||||
"github": "https://github.com/scverse/scvi-tools",
|
||||
"documentation": "https://docs.scvi-tools.org/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/scverse/scvi-tools",
|
||||
"https://docs.scvi-tools.org/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "seqbench",
|
||||
@@ -5908,9 +6243,22 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"single-cell-rna-seq"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"gene"
|
||||
],
|
||||
"github": "https://github.com/satijalab/seurat",
|
||||
"documentation": "https://satijalab.org/seurat/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/satijalab/seurat",
|
||||
"https://satijalab.org/seurat/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "squidpy",
|
||||
@@ -5924,9 +6272,22 @@ validated: false
|
||||
"tasks": [
|
||||
"Preprocessing"
|
||||
],
|
||||
"modalities": [],
|
||||
"modalities": [
|
||||
"spatial-transcriptomics"
|
||||
],
|
||||
"organism": [],
|
||||
"api": false
|
||||
"api": false,
|
||||
"entities": [
|
||||
"cell",
|
||||
"tissue"
|
||||
],
|
||||
"github": "https://github.com/scverse/squidpy",
|
||||
"documentation": "https://squidpy.readthedocs.io/",
|
||||
"last_checked": "2026-08-08",
|
||||
"metadata_sources": [
|
||||
"https://github.com/scverse/squidpy",
|
||||
"https://squidpy.readthedocs.io/"
|
||||
]
|
||||
},
|
||||
{
|
||||
"id": "stagate",
|
||||
|
||||
Reference in New Issue
Block a user