Wolfram Language Paclet Repository
Community-contributed installable additions to the Wolfram Language
JaneShenGunther`TCGADataTool`
radiologicalImagesBatchProcessing  |
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Details and Options
Examples
(5)
Basic Examples
(1)
Get example data for TCGA-CESC project and select a set of valid patient UUIDs.
In[1]:=
dataStructure=
[{"TCGAProjectData","TCGACESCExceptGenomicDataAllPatients"}];
 | exampleDataTCGA |
In[2]:=
patientUUIDs={"03804F9B-DF7C-462C-8984-8EB3A5ED4999"};
Batch process all images for the selected patient UUID: return a list of ImageHistogram for all patient images.
In[3]:=
 | radiologicalImagesBatchProcessing |
Mon 27 Feb 2023 17:46:45 Processing patient UUID 03804F9B-DF7C-462C-8984-8EB3A5ED4999
Mon 27 Feb 2023 17:46:45 Getting radiological images for patient UUID 03804F9B-DF7C-462C-8984-8EB3A5ED4999...
Mon 27 Feb 2023 17:46:45 Identified 11 radiological image series for patient UUID 03804F9B-DF7C-462C-8984-8EB3A5ED4999
Mon 27 Feb 2023 17:46:45 Download for patient UUID 03804F9B-DF7C-462C-8984-8EB3A5ED4999 started...
Mon 27 Feb 2023 17:48:28 Download for patient UUID 03804F9B-DF7C-462C-8984-8EB3A5ED4999 completed.
Mon 27 Feb 2023 17:48:30 Starting processing of 386images...
Mon 27 Feb 2023 17:49:16 Processing of images completed.
Mon 27 Feb 2023 17:49:16 Processing results aggregation...
Mon 27 Feb 2023 17:49:16 Done processing for patient UUID 03804F9B-DF7C-462C-8984-8EB3A5ED4999
Out[3]//Short=
{bcr_patient_uuid03804F9B-DF7C-462C-8984-8EB3A5ED4999,ImageProcessingResult{{512,512},{512,512},{512,512},{512,512},{512,512},{512,512},375,{256,256},{256,256},{256,256},{256,256},{256,256}}}
Check files downloaded in default download folder:
In[4]:=
FileNames["*.zip",FileNameJoin[{$TemporaryDirectory,"TCGADataTool"}],{2}]//Short
Out[4]//Short=
{/private/var/folders/3b/ww4mz2cs6330gcxp5cpf2nbw0000gn/T/TCGADataTool/03804F9B-DF7C-462C-8984-8EB3A5ED4999/1.3.6.1.4.1.14519.5.2.1.6354.4022.154159472446593990009898210321.zip,9,/private/va…4514449.zip}
Options
(4)
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