Problem with some annotations

Dear Organizers,

We have noticed that some of the semantic segmentation annotations used for some images don't appear to match up with the corresponding image. We wonder if you could shed some light on this? In particular, the following images: TCGA-HN-A2NL-01Z-00-DX1.C2EAF378-4B37-4C1C-BB0F-18FAC62EEC13_[5967, 2884, 6487, 3498], TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[2888, 3422, 3494, 3935], TC_S01_P000159_C0001_B108_[35570, 47488, 36673, 48578].

Thank you for your help.

Best wishes, Adam

Dear Adam,

Thank you for your message, and thanks for pointing us to these issues. There were indeed some mistakes in the annotation files that I missed. My apologies for any inconvenience.

There was a scaling problem for the two TCGA slides, which resulted in incorrect annotations. For the TC slide, there was a mix-up between classes.

I have updated the following files:

TCGA-OL-A5RW:

added: s3://tiger-training/wsirois/roi-level-annotations/tissue-bcss/images/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[5776, 6844, 6988, 7870].png s3://tiger-training/wsirois/roi-level-annotations/tissue-bcss/masks/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[5776, 6844, 6988, 7870].png s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/images/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[6268, 7092, 6554, 7364].png s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/images/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[6516, 7334, 6812, 7614].png s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/masks/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[6268, 7092, 6554, 7364].png s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/masks/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[6516, 7334, 6812, 7614].png deleted: s3://tiger-training/wsirois/roi-level-annotations/tissue-bcss/images/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[2888, 3422, 3494, 3935].png s3://tiger-training/wsirois/roi-level-annotations/tissue-bcss/masks/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[2888, 3422, 3494, 3935].png s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/images/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[3134, 3546, 3277, 3682].png s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/images/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[3258, 3667, 3406, 3807].png s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/masks/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[3134, 3546, 3277, 3682].png s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/masks/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF_[3258, 3667, 3406, 3807].png updated: s3://tiger-training/wsirois/wsi-level-annotations/annotations-tissue-cells-xmls/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF.xml s3://tiger-training/wsirois/wsi-level-annotations/annotations-tissue-cells-masks/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF.tif s3://tiger-training/wsirois/wsi-level-annotations/annotations-tissue-bcss-xmls/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF.xml s3://tiger-training/wsirois/wsi-level-annotations/annotations-tissue-bcss-masks/TCGA-OL-A5RW-01Z-00-DX1.E16DE8EE-31AF-4EAF-A85F-DB3E3E2C3BFF.tif

TCGA-HN-A2NL:

added: s3://tiger-training/wsirois/roi-level-annotations/tissue-bcss/images/TCGA-HN-A2NL-01Z-00-DX1.C2EAF378-4B37-4C1C-BB0F-18FAC62EEC13_[11934, 5768, 12975, 6996].png s3://tiger-training/wsirois/roi-level-annotations/tissue-bcss/masks/TCGA-HN-A2NL-01Z-00-DX1.C2EAF378-4B37-4C1C-BB0F-18FAC62EEC13_[11934, 5768, 12975, 6996].png

deleted s3://tiger-training/wsirois/roi-level-annotations/tissue-bcss/images/TCGA-HN-A2NL-01Z-00-DX1.C2EAF378-4B37-4C1C-BB0F-18FAC62EEC13_[5967, 2884, 6487, 3498].png s3://tiger-training/wsirois/roi-level-annotations/tissue-bcss/masks/TCGA-HN-A2NL-01Z-00-DX1.C2EAF378-4B37-4C1C-BB0F-18FAC62EEC13_[5967, 2884, 6487, 3498].png

updated: s3://tiger-training/wsirois/wsi-level-annotations/annotations-tissue-bcss-xmls/TCGA-HN-A2NL-01Z-00-DX1.C2EAF378-4B37-4C1C-BB0F-18FAC62EEC13.xml s3://tiger-training/wsirois/wsi-level-annotations/annotations-tissue-bcss-masks/TCGA-HN-A2NL-01Z-00-DX1.C2EAF378-4B37-4C1C-BB0F-18FAC62EEC13.tif

TC_S01_P000159:

updated: s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/masks/TC_S01_P000159_C0001_B108_[35570, 47488, 36673, 48578].png s3://tiger-training/wsirois/wsi-level-annotations/annotations-tissue-cells-xmls/TC_S01_P000159_C0001_B108.xml s3://tiger-training/wsirois/wsi-level-annotations/annotations-tissue-cells-masks/TC_S01_P000159_C0001_B108.tif

Coco json updated: s3://tiger-training/wsirois/roi-level-annotations/tissue-cells/tiger-coco.json

Dear Mart,

Thank you very much for the update.

Best wishes, Adam