[HCA] Liver Caudate Lobe (properly cell-filtered) ASAP10 v5

299,486 cells H. sapiens

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Success Runs (29)

Gene Enrichment #6 - Fisher's Exact Test about 6 years ago

input_de: Differential expr... fdr_cutoff: 0.05 fc_cutoff: 2 gene_set_id: 2761 adj_method: fdr min: 15 max: 500

Gene Enrichment #5 - Fisher's Exact Test about 6 years ago

input_de: Differential expr... fdr_cutoff: 0.05 fc_cutoff: 2 gene_set_id: 2761 adj_method: fdr min: 15 max: 500

Gene Enrichment #4 - Fisher's Exact Test about 6 years ago

input_de: Differential expr... fdr_cutoff: 0.05 fc_cutoff: 2 gene_set_id: 2761 adj_method: fdr min: 15 max: 500

Gene Enrichment #3 - Fisher's Exact Test about 6 years ago

input_de: Differential expr... fdr_cutoff: 0.05 fc_cutoff: 2 gene_set_id: 2761 adj_method: fdr min: 15 max: 500

Gene Enrichment #2 - Fisher's Exact Test about 6 years ago

input_de: Differential expr... fdr_cutoff: 0.05 fc_cutoff: 2 gene_set_id: 2761 adj_method: fdr min: 15 max: 500

Gene Enrichment #1 - Fisher's Exact Test about 6 years ago

input_de: Differential expr... fdr_cutoff: 0.05 fc_cutoff: 2 gene_set_id: 2761 adj_method: fdr min: 15 max: 500

Differential expression #7 - Wilcoxon [Seurat] about 6 years ago

input_matrix: Normalization #1 ... groups: 1 datasets all_against_compl: false group_pairs: [] group_ref: 4 group_comp: min_pct: 0.1 min_diff_pct: fc_threshold: 1.3 max_cells_per_ident:

Differential expression #6 - Wilcoxon [Seurat] about 6 years ago

input_matrix: Normalization #1 ... groups: 1 datasets all_against_compl: false group_pairs: [] group_ref: 10 group_comp: min_pct: 0.1 min_diff_pct: fc_threshold: 1.3 max_cells_per_ident:

Differential expression #5 - Wilcoxon [Seurat] about 6 years ago

input_matrix: Normalization #1 ... groups: 1 datasets all_against_compl: false group_pairs: [] group_ref: 20 group_comp: min_pct: 0.1 min_diff_pct: fc_threshold: 1.3 max_cells_per_ident:

Differential expression #4 - Wilcoxon [ASAP] about 6 years ago

input_matrix: Normalization #1 ... groups: 1 datasets all_against_compl: false group_pairs: [] group_ref: 20 group_comp: min_pct: 0.1 min_diff_pct: fc_threshold: 1.3 max_cells_per_ident:

Differential expression #3 - Wilcoxon [ASAP] about 6 years ago

input_matrix: Normalization #1 ... groups: 1 datasets all_against_compl: false group_pairs: [] group_ref: 10 group_comp: min_pct: 0.1 min_diff_pct: fc_threshold: 1.3 max_cells_per_ident:

Differential expression #1 - Wilcoxon [ASAP] about 6 years ago

input_matrix: Normalization #1 ... groups: 1 datasets all_against_compl: false group_pairs: [] group_ref: 4 group_comp: min_pct: 0.1 min_diff_pct: fc_threshold: 1.3 max_cells_per_ident:

Clustering #2 - Seurat about 6 years ago

input_matrix: Dimension reducti... k: 20 resolution: 0.8 algorithm: louvain graph_type: nn

Clustering #1 - Seurat about 6 years ago

input_matrix: Dimension reducti... k: 20 resolution: 0.8 algorithm: louvain graph_type: snn

Dimension reduction #7 - t-SNE [scanpy] about 6 years ago

input_matrix: Dimension reducti... nber_dims: 3 perplexity: 30 early_exag: 12 learning_rate: 200 random_state: 0

Dimension reduction #6 - t-SNE [scanpy] about 6 years ago

input_matrix: Dimension reducti... nber_dims: 2 perplexity: 30 early_exag: 12 learning_rate: 200 random_state: 0

Dimension reduction #5 - t-SNE [Seurat, Rtsne] about 6 years ago

input_matrix: Dimension reducti... nber_dims: 3 perplexity: 30 theta: 0.5

Dimension reduction #4 - t-SNE [Seurat, Rtsne] about 6 years ago

input_matrix: Dimension reducti... nber_dims: 2 perplexity: 30 theta: 0.5

Dimension reduction #3 - UMAP about 6 years ago

input_matrix: Dimension reducti... nber_dims: 3 min_dist: 0.1 n_neighbors: 30 metric: correlation

Dimension reduction #2 - UMAP about 6 years ago

input_matrix: Dimension reducti... nber_dims: 2 min_dist: 0.1 n_neighbors: 30 metric: correlation

... and 9 more

Failed Runs (1)

Removing covariates #1 - fastMNN about 5 years ago

input_matrix: Normalization #1 ... covariates: 1 datasets k: 20 ndist: 3 d: 50

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Summary Visualization Analysis Data Compliance

Info

Releases

Release notes & changelog

Project types

Available project types and their configurations

Cell ontologies

Ontology catalogs mirrored from legacy ASAP

Cell metadata schema

Cell metadata used by ASAP to annotate single-cell datasets

Cross-references

Identifier types and external database links

Atlases

FCA and HCA reference pages and entry points

Tutorials

Step-by-step guides for new users

File formats

Supported upload and export formats

API documentation

OpenAPI/Swagger reference for JSON endpoints

FAQ

Frequently asked questions about ASAP

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Feedback

Discussions Feature requests and issues Contact us Rate the app

Back to Projects

Releases

Release notes & changelog

Project types

Available project types and their configurations

Cell ontologies

Ontology catalogs mirrored from legacy ASAP

Cell metadata schema

Cell metadata used by ASAP to annotate single-cell datasets

Cross-references

Identifier types and external database links

Atlases

FCA and HCA reference pages and entry points

Tutorials

Step-by-step guides for new users

File formats

Supported upload and export formats

API documentation

OpenAPI/Swagger reference for JSON endpoints

FAQ

Frequently asked questions about ASAP

Discussions

Ask questions and share ideas

Feature requests and issues

Report bugs or suggest improvements

Reach the ASAP team by email

Rate the app

Share your experience with ASAP

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[HCA] Liver Caudate Lobe (properly cell-filtered) ASAP10 v5

Gene filtering #2 (hvg_scanpy) - Cell Metadata - specimen_from_organism.organ_parts.ontology_label

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