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cvlab-stonybrook / PLM_SSL

Repository for "Precise Location Matching Improves Dense Contrastive Learning in Digital Pathology"
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TCGA-BRCA dataset #6

Closed shuaijun-36 closed 1 year ago

shuaijun-36 commented 1 year ago

where can i download the TCGA-BRCA dataset

shuaijun-36 commented 1 year ago

why I downloaded from https://wiki.cancerimagingarchive.net/pages/viewpage.action?pageId=3539225#3539225297797a99bb444d3a9139690b0ceb31d is .dcm files, and the metadata file says they are MRI images?

shuaijun-36 commented 1 year ago

could you please provide the 'TCGA-BRCA-100K' dataset created by you? ：）

jingweizhang-xyz commented 1 year ago

You can get access to TCGA-BRCA slides here: https://portal.gdc.cancer.gov/repository?facetTab=files&filters=%7B%22content%22%3A%5B%7B%22content%22%3A%7B%22field%22%3A%22cases.project.project_id%22%2C%22value%22%3A%5B%22TCGA-BRCA%22%5D%7D%2C%22op%22%3A%22in%22%7D%2C%7B%22content%22%3A%7B%22field%22%3A%22files.experimental_strategy%22%2C%22value%22%3A%5B%22Diagnostic%20Slide%22%5D%7D%2C%22op%22%3A%22in%22%7D%5D%2C%22op%22%3A%22and%22%7D&searchTableTab=files I remembered that they have a command line program and a GUI program to download it. I am packing TCGA-BRCA-100k and will share with you later.

jingweizhang-xyz commented 1 year ago

Here it is: https://drive.google.com/file/d/1ii8-kzuHWsMerlVxj-xsQk0G0lzmAL-Q/view?usp=sharing