Single cell browsers: Difference between revisions
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* simple user interface: http://covid19.cancer-pku.cn/ | * simple user interface: http://covid19.cancer-pku.cn/ | ||
* using cellxgene | * using cellxgene | ||
** https://cellxgene.cziscience.com/e/96a3f64b-0ee9-40d8-91e9-813ce38261c9.cxg/ | |||
** https://www.covid19cellatlas.org/ | ** https://www.covid19cellatlas.org/ | ||
** https://www.heartcellatlas.org/ | ** https://www.heartcellatlas.org/ | ||
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* Browser with a collection of datasets: https://artyomovlab.wustl.edu/scn/. Datasets are mostly from GEO and automatically reprocessed through their own pipeline. | * Browser with a collection of datasets: https://artyomovlab.wustl.edu/scn/. Datasets are mostly from GEO and automatically reprocessed through their own pipeline. | ||
* Linnarsson lab mouse brain datasets: http://mousebrain.org/. Here's the loom viewer for a specific brain region: http://loom.linnarssonlab.org/dataset/cellmetadata/Mousebrain.org.level1/L1_Amygdala.loom | * Linnarsson lab mouse brain datasets: http://mousebrain.org/. Here's the loom viewer for a specific brain region: http://loom.linnarssonlab.org/dataset/cellmetadata/Mousebrain.org.level1/L1_Amygdala.loom | ||
** now as a wheel? http://mousebrain.org/development/wheel.html | |||
* Viewer for Seurat 4.0 dataset: https://atlas.fredhutch.org/nygc/multimodal-pbmc/ | * Viewer for Seurat 4.0 dataset: https://atlas.fredhutch.org/nygc/multimodal-pbmc/ | ||
* fetal gene atlas: https://descartes.brotmanbaty.org/bbi/human-gene-expression-during-development/ | * fetal gene atlas: https://descartes.brotmanbaty.org/bbi/human-gene-expression-during-development/ | ||
* Using UCSC Cell Browser: | |||
** http://retinalstemcellresearch.co.uk/CorneaCellAtlas/ | |||
Dataset collections from Max: | Dataset collections from Max: | ||
Latest revision as of 15:03, 22 October 2021
- simple user interface: http://covid19.cancer-pku.cn/
- using cellxgene
- Browser with a collection of datasets: https://artyomovlab.wustl.edu/scn/. Datasets are mostly from GEO and automatically reprocessed through their own pipeline.
- Linnarsson lab mouse brain datasets: http://mousebrain.org/. Here's the loom viewer for a specific brain region: http://loom.linnarssonlab.org/dataset/cellmetadata/Mousebrain.org.level1/L1_Amygdala.loom
- now as a wheel? http://mousebrain.org/development/wheel.html
- Viewer for Seurat 4.0 dataset: https://atlas.fredhutch.org/nygc/multimodal-pbmc/
- fetal gene atlas: https://descartes.brotmanbaty.org/bbi/human-gene-expression-during-development/
- Using UCSC Cell Browser:
Dataset collections from Max:
- EBI SXA
- Broad (systematic enough?)
- HCA DCP
- Scope https://vsn-pipelines-examples.readthedocs.io/en/latest/
