From 4ddac57d8d13f20cbbff2608da344fa9b7245db5 Mon Sep 17 00:00:00 2001 From: Akos Szolgyen Date: Fri, 6 Feb 2026 11:46:52 -0600 Subject: [PATCH] Update README with new metrics for slidename.json Metrics descriptions need to be added. --- README.md | 38 +++++++++++++++++++++++++++++++++++++- 1 file changed, 37 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index 2b9c45a..17a48e8 100644 --- a/README.md +++ b/README.md @@ -112,7 +112,43 @@ The code creates two folders in the mounted output directory: - *slidename*_RoiLocs.csv - ROI coordinates and scores - *slidename*_RoiLocs.png - visualization of ROI locations - *slidename*.json - aggregated features of the whole slide - - *slidename*.tif - combined segmentation mask
MuTILsMaskVisualizer.py can be used to convert it to a color-coded image + - *slidename*.tif - combined segmentation mask (MuTILsMaskVisualizer.py can be used to convert it to a color-coded image) + - slidename.json - has the following aggregated metrics: + - n_rois: + - n_salient_rois: + - Mean_SaliencyScore: + - Mean_TissueRatio: + - Mean_TILs2AnyStromaRatio: + - Mean_TILs2AllRatio: + - Mean_TILs2TumorRatio: + - Mean_SalientTILs2StromaRatio: + - Mean_nTILsCells2AnyStromaRegionArea: + - Mean_nTILsCells2nStromaCells: + - Mean_nTILsCells2nAllStromaCells: + - Mean_nTILsCells2nAllCells: + - Mean_nTILsCells2nTumorCells: + - Std_SaliencyScore: + - Std_TissueRatio: + - Std_TILs2AnyStromaRatio: + - Std_TILs2AllRatio: + - Std_TILs2TumorRatio: + - Std_SalientTILs2StromaRatio: + - Std_nTILsCells2AnyStromaRegionArea: + - Std_nTILsCells2nStromaCells: + - Std_nTILsCells2nAllStromaCells: + - Std_nTILsCells2nAllCells: + - Std_nTILsCells2nTumorCells: + - SaliencyScore: + - TissueRatio: + - TILs2AnyStromaRatio: + - TILs2AllRatio: + - TILs2TumorRatio: + - SalientTILs2StromaRatio: + - nTILsCells2AnyStromaRegionArea: + - nTILsCells2nStromaCells: + - nTILsCells2nAllStromaCells: + - nTILsCells2nAllCells: + - nTILsCells2nTumorCells: ### Model weights