Datasets:
Commit Β·
9f6c83c
1
Parent(s): b040668
[doc] update docs
Browse files
doc/tl-annotation-stats-v1.4.0.md
CHANGED
|
@@ -55,6 +55,70 @@ threshold. Above 21 px recall is β₯0.96 and above 101 px it is β₯0.996 β the
|
|
| 55 |
the fit guards are removing sub-resolution speckle in the masks, not lesions. Read the
|
| 56 |
corpus number as "0.547 of components", never as "0.547 of findable lesions".
|
| 57 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 58 |
### The axial/reformatted gap tracks anisotropy
|
| 59 |
|
| 60 |
On thick-slice datasets the axial plane is near-complete while the reconstructed planes
|
|
|
|
| 55 |
the fit guards are removing sub-resolution speckle in the masks, not lesions. Read the
|
| 56 |
corpus number as "0.547 of components", never as "0.547 of findable lesions".
|
| 57 |
|
| 58 |
+
### Recall climbs with physical size β β₯20 mm disease is β₯0.97 everywhere
|
| 59 |
+
|
| 60 |
+
`tl_recall_by_length.csv` re-stratifies the same exactly-attributed clusters by physical
|
| 61 |
+
extent instead of pixel count. The per-cluster length is the **max Feret diameter of its
|
| 62 |
+
pixel centres in millimetres**, each in-plane axis scaled by its own spacing (43.8% of
|
| 63 |
+
slices are anisotropic in-plane, so a pixel-space diameter would mis-size them). It comes
|
| 64 |
+
from the same mask recount as the denominator, with spacing read from the NIfTI header
|
| 65 |
+
zooms, so it exists for every cluster β unmeasured ones included, which the fitted major
|
| 66 |
+
axis by definition cannot cover. Its margins reproduce the corpus numbers exactly
|
| 67 |
+
(6,951,667 clusters, 3,801,540 measured, 0.547).
|
| 68 |
+
|
| 69 |
+
| Feret length | Clusters | Measured | Recall |
|
| 70 |
+
| --- | ---: | ---: | ---: |
|
| 71 |
+
| β€2 mm | 2,232,427 | 1,952 | 0.001 |
|
| 72 |
+
| 2β5 mm | 974,881 | 409,412 | 0.420 |
|
| 73 |
+
| 5β10 mm | 955,724 | 694,683 | 0.727 |
|
| 74 |
+
| 10β20 mm | 1,055,235 | 976,105 | 0.925 |
|
| 75 |
+
| 20β50 mm | 1,263,241 | 1,250,268 | 0.990 |
|
| 76 |
+
| 50β100 mm | 413,816 | 412,849 | 0.998 |
|
| 77 |
+
| >100 mm | 56,343 | 56,271 | 0.999 |
|
| 78 |
+
|
| 79 |
+
This is the clinical-units counterpart of the pixel table above, and the direct check of
|
| 80 |
+
what the v1.4.0 millimetre floor set out to do. **Recall is 0.967 at β₯10 mm and 0.992 at
|
| 81 |
+
β₯20 mm, and at β₯20 mm no dataset is below 0.97** β the release
|
| 82 |
+
[blog post](https://medvision-vlm.github.io/blog/tl-annotations-v140.html)'s headline
|
| 83 |
+
claim ("above 97% in every one of the 12 collections, and 99% overall"), reproduced here
|
| 84 |
+
per dataset:
|
| 85 |
+
|
| 86 |
+
| Dataset | β₯20 mm clusters | Measured | Recall |
|
| 87 |
+
| --- | ---: | ---: | ---: |
|
| 88 |
+
| KiPA22 | 11,297 | 11,297 | 1.000 |
|
| 89 |
+
| LIDC-IDRI | 8,039 | 8,036 | 1.000 |
|
| 90 |
+
| HNTSMRG24 | 36,959 | 36,936 | 0.999 |
|
| 91 |
+
| MSWAL | 73,392 | 73,341 | 0.999 |
|
| 92 |
+
| MAMA-MIA | 155,306 | 154,901 | 0.997 |
|
| 93 |
+
| BraTS24 | 705,471 | 702,719 | 0.996 |
|
| 94 |
+
| DEEP-PSMA | 84,086 | 83,675 | 0.995 |
|
| 95 |
+
| LNQ2023 | 17,718 | 17,542 | 0.990 |
|
| 96 |
+
| KiTS23 | 66,580 | 65,835 | 0.989 |
|
| 97 |
+
| MSD | 307,790 | 303,468 | 0.986 |
|
| 98 |
+
| autoPET-III | 254,062 | 249,289 | 0.981 |
|
| 99 |
+
| PI-CAI | 12,700 | 12,349 | 0.972 |
|
| 100 |
+
| **All 12** | **1,733,400** | **1,719,388** | **0.992** |
|
| 101 |
+
|
| 102 |
+
The β₯20 mm ranking has almost nothing to do with the overall-recall ranking: MSD, worst
|
| 103 |
+
overall at 0.336, reads 0.986 here, and DEEP-PSMA goes 0.645 β 0.995. Datasets differ in
|
| 104 |
+
their speckle load, not in how well sizeable lesions are measured. Of the 3,150,127
|
| 105 |
+
unmeasured clusters, 88.8% are β€5 mm, 97.0% are β€10 mm, and 14,012 (0.44%) are β₯20 mm.
|
| 106 |
+
|
| 107 |
+
The ramp between 2 and 20 mm is the resolution-adjusted floor, not a leak: v1.4.0
|
| 108 |
+
measures a cluster when its *fitted* major axis clears max(2 mm, 2 Γ the coarser in-plane
|
| 109 |
+
spacing), so the 2 mm term binds only on sub-millimetre grids β a 3 mm-spacing reformat
|
| 110 |
+
keeps nothing under 6 mm β and physical recall climbs over a decade instead of stepping
|
| 111 |
+
at 2 mm. Two properties of the binning itself:
|
| 112 |
+
|
| 113 |
+
* The bin variable is the Feret proxy, not the fitted axis, and the two straddle the
|
| 114 |
+
floor differently (pixel centres understate a contour's extent by about one pixel),
|
| 115 |
+
which is why the β€2 mm bin is not empty by construction: 1,952 measured clusters land
|
| 116 |
+
there.
|
| 117 |
+
* States are paired with lengths positionally through the pixel-count multiset, and two
|
| 118 |
+
same-count clusters on one slice are interchangeable under it β counts and recall stay
|
| 119 |
+
exact, but which of the two lengths goes with "measured" is arbitrary at that
|
| 120 |
+
degeneracy. `ambiguous = 0` in every bin, as in the pixel table.
|
| 121 |
+
|
| 122 |
### The axial/reformatted gap tracks anisotropy
|
| 123 |
|
| 124 |
On thick-slice datasets the axial plane is near-complete while the reconstructed planes
|