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update summary section
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littlecabiria committed Jan 13, 2025
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Showing 1 changed file with 8 additions and 8 deletions.
16 changes: 8 additions & 8 deletions src/metrics/downstream/config.vsh.yaml
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Expand Up @@ -5,7 +5,7 @@ name: downstream
info:
metrics:
- name: clustering_ari
label: ARI
label: clustering_ari
summary: Adjusted rand index (ARI) measures the similarity between two clusters in real and simulated datasets.
description: |
Adjusted Rand Index used in spatial clustering to measure the similarity between two data clusterings, adjusted for chance.
Expand All @@ -18,7 +18,7 @@ info:
max: +Inf
maximize: true
- name: clustering_nmi
label: NMI
label: clustering_nmi
summary: Normalized mutual information (NMI) measures of the mutual dependence between the real and simulated spatial clusters.
description: |
Normalized Mutual Information used in spatial clustering to measure the agreement between two different clusterings, scaled to [0, 1].
Expand All @@ -31,7 +31,7 @@ info:
max: 1
maximize: true
- name: svg_recall
label: recall
label: svg_recall
summary: Recall measures the proportion of real SVG correctly identified in the simulated dataset.
description: |
Recall used in identifying spatial variable genes, measuring the true positive rate.
Expand All @@ -41,7 +41,7 @@ info:
max: 1
maximize: true
- name: svg_precision
label: precision
label: svg_precision
summary: Precision measures the proportion of correctly identified items in simulated datasets.
description: |
Precision used in identifying spatial variable genes, measuring the accuracy of positive predictions.
Expand All @@ -51,7 +51,7 @@ info:
max: 1
maximize: true
- name: ctdeconvolute_rmse
label: RMSE
label: ctdeconvolute_rmse
summary: Root Mean Square deviation is calculated between the true and predicted proportion of per cell type.
description: |
Root Mean Squared Error used in cell type deconvolution to measure the difference between observed and predicted values.
Expand All @@ -64,7 +64,7 @@ info:
max: +Inf
maximize: false
- name: ctdeconcolute_jsd
label: JSD
label: ctdeconcolute_jsd
summary: Jensen-Shannon divergence (JSD) is calculated between the true and predicted proportion per cell type in all spots.
description: |
Jensen-Shannon Divergence used in cell type deconvolution to measure the similarity between two probability distributions.
Expand All @@ -77,7 +77,7 @@ info:
max: 1
maximize: false
- name: crosscor_mantel
label: mantel_stat
label: crosscor_mantel
summary: Mantel statistic is the test statistic for the Mantel test, which is a correlation coefficient calculated between bivariate Moran’s I of real dataset and that of in simulation dataset.
description: |
Mantel statistic used in spatial cross-correlation to test the correlation between two distance matrices.
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max: 1
maximize: true
- name: crosscor_cosine
label: cosine
label: crosscor_cosine
summary: Cosine similarity measures similarity between bivariate Moran’s I of real dataset and that of in simulation dataset.
description: |
Cosine similarity used in spatial cross-correlation to measure the cosine of the angle between two non-zero vectors.
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