Skip to content

Commit 9955681

Browse files
committed
Add CBI v0.0.1-rc3
1 parent e73c194 commit 9955681

6 files changed

Lines changed: 11330 additions & 0 deletions

File tree

Lines changed: 56 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,56 @@
1+
[
2+
{
3+
"name": "lille_spectral_flow_cytometry",
4+
"label": "Spectral flow cytometry data from Lille",
5+
"commit": "missing-sha",
6+
"summary": "Spectral flow cytometry data of mouse SPLENOCYTES measured with 28-colour panel across two batches.",
7+
"description": "Spectral flow cytometry data of mouse SPLENOCYTES measured with 28-colour panel across two batches.For each mouse, aliquotes of the same original sample were divided into 2 batches and measured across 2 different instrument settingsto allow the creation of sample-paired replicates for benchmarking purposes.Mice are exposed to smoke (GROUP 5) or not (GROUP 1).Data has been unmixed using OLS (SpectroFlow Cytek), cleaned with PeacoQC, tranformed using arcsinh, and pregated on live single CD45+ cells.",
8+
"source_urls": [],
9+
"common_dataset_names": null,
10+
"modalities": [],
11+
"organisms": ["Mus musculus"],
12+
"authors": [],
13+
"references": {
14+
"doi": [],
15+
"bibtex": []
16+
},
17+
"date_created": "01-09-2026",
18+
"file_size_mb": 235.9636
19+
},
20+
{
21+
"name": "human_blood_mass_cytometry",
22+
"label": "Human Blood Mass Cytometry",
23+
"commit": "missing-sha",
24+
"summary": "Mass cytometry dataset of whole blood from 2 human donors. For each donor, 2 samples are included: one unstimulated and one stimulated. For each of these, aliquotes of the same original sample were divided into 2 batches to allow the creation of sample-paired replicates for benchmarking purposes.",
25+
"description": "CyTOF data (whole blood) from 2 human donors, each with unstimulated and stimulated samples. The stimulated samples were treated with Interferonα (IFNα) and Lipopolysaccharide (LPS). The mass cytometry cytometry panel includes 21 surface markers for cell phenotyping and 14 markers for functional analysis of the signaling responses. The data has been arcsinh transformed with cofactor 5 and pregated to only include events which fall either in the CD66-CD45+ or CD66+ gates.",
26+
"source_urls": ["http://flowrepository.org/id/FR-FCM-Z247"],
27+
"common_dataset_names": null,
28+
"modalities": [],
29+
"organisms": ["Homo Sapiens"],
30+
"authors": [],
31+
"references": {
32+
"doi": [],
33+
"bibtex": ["@article{vangassen2020cytonorm,title={CytoNorm: a normalization algorithm for cytometry data},author={Van Gassen, Sofie and Gaudilliere, Brice and Angst, Martin S and Saeys, Yvan and Aghaeepour, Nima},journal={Cytometry Part A},volume={97},number={3},pages={268--278},year={2020},publisher={Wiley Online Library}}"]
34+
},
35+
"date_created": "01-09-2026",
36+
"file_size_mb": 149.1322
37+
},
38+
{
39+
"name": "mouse_spleen_flow_cytometry",
40+
"label": "Mouse Spleen Flow Cytometry",
41+
"commit": "missing-sha",
42+
"summary": "Flow cytometry data of spleens of 8 mice. For each mouse, aliquotes of the same original sample were divided into 2 batches and measured with 2 different instrument settings to allow the creation of sample-paired replicates for benchmarking purposes.",
43+
"description": "Flow cytometry data of spleens from 4 WT (IKK2 fl/fl CD11c-cre +/+) and 4 KO (IKK2 fl/fl CD11c-cre Tg/+) B6 mice, measured with a 22-color panel and 2 different instrument settings. Data has been preprocessed (compensated with a batch-specific compensation matrix, logicle transformed, cleaned with PeacoQC and pregated on live single CD45+ cells).",
44+
"source_urls": ["https://github.com/openproblems-bio/task_cyto_batch_integration"],
45+
"common_dataset_names": null,
46+
"modalities": [],
47+
"organisms": ["Mus musculus"],
48+
"authors": [],
49+
"references": {
50+
"doi": [],
51+
"bibtex": ["@article{leomazzi2025biorxiv, title={Benchmarking batch integration methods for mass cytometry data}, author={Leomazzi, Luca and Putri, Givanna and Cannoodt, Robrecht and Quintelier, Katrien and Van Gassen, Sofie}, journal={bioRxiv -- in preparation}, year={2025}}"]
52+
},
53+
"date_created": "01-09-2026",
54+
"file_size_mb": 770.4864
55+
}
56+
]

0 commit comments

Comments
 (0)