Skip to content

Commit

Permalink
update summary section of downstream task
Browse files Browse the repository at this point in the history
  • Loading branch information
littlecabiria committed Jan 13, 2025
1 parent bf1f6d1 commit 64393c2
Showing 1 changed file with 16 additions and 16 deletions.
32 changes: 16 additions & 16 deletions src/metrics/downstream/config.vsh.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -5,8 +5,8 @@ name: downstream
info:
metrics:
- name: clustering_ari
label: clustering_ari
summary: ARI
label: 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.
references:
Expand All @@ -18,8 +18,8 @@ info:
max: +Inf
maximize: true
- name: clustering_nmi
label: clustering_nmi
summary: NMI
label: 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].
references:
Expand All @@ -31,8 +31,8 @@ info:
max: 1
maximize: true
- name: svg_recall
label: svg_recall
summary: Recall
label: 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.
references:
Expand All @@ -41,8 +41,8 @@ info:
max: 1
maximize: true
- name: svg_precision
label: svg_precision
summary: Precision (Spatial Variable Gene)
label: 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.
references:
Expand All @@ -51,8 +51,8 @@ info:
max: 1
maximize: true
- name: ctdeconvolute_rmse
label: ctdeconvolute_rmse
summary: RMSE
label: 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.
references:
Expand All @@ -64,8 +64,8 @@ info:
max: +Inf
maximize: false
- name: ctdeconcolute_jsd
label: ctdeconcolute_jsd
summary: JSD
label: 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.
references:
Expand All @@ -77,8 +77,8 @@ info:
max: 1
maximize: false
- name: crosscor_mantel
label: crosscor_mantel
summary: Mantel Statistic
label: mantel_stat
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.
references:
Expand All @@ -90,8 +90,8 @@ info:
max: 1
maximize: true
- name: crosscor_cosine
label: crosscor_cosine
summary: Cosine Similarity
label: 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.
references:
Expand Down

0 comments on commit 64393c2

Please sign in to comment.