Create vis for comparion biomarker expressions across cells and datasets

cns-iu / hra-cell-type-populations-supporting-information

Supporting information page for the HRApop paper

https://cns-iu.github.io/hra-cell-type-populations-supporting-information/

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Create vis for comparion biomarker expressions across cells and datasets #133

Closed andreasbueckle closed 3 months ago

andreasbueckle commented 5 months ago

From @katyb, 4/13/24: It would be great to have a graph like attached that shows the distribution of the #cells that have certain expression levels for the top 20-40 biomarkers.

TODOs:

@andreasbueckle create dataset (CSV) with:

organ_id | organ_label | dataset_id | cell_id | cell_label | gene_label | mean_gene_expression_value

Uses https://lod.humanatlas.io/graph/hra-pop/v0.10.2/assets/atlas-enriched-dataset-graph.jsonld

@mginda renders density plot:

color area under curve by organ

bherr2 commented 5 months ago

CSV Results are here: https://github.com/x-atlas-consortia/hra-pop/blob/main/output-data/v0.10.2/reports/atlas/validation-b-mean-expression.csv

bherr2 commented 5 months ago

Note I added tool and modality as well