oncotree
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cBioPortal
Bumps [org.springframework:spring-context](https://github.com/spring-projects/spring-framework) from 5.1.7.RELEASE to 5.2.22.RELEASE. Release notes Sourced from org.springframework:spring-context's releases. v5.2.22.RELEASE :star: New Features Refine CachedIntrospectionResults property introspection #28446 :lady_beetle: Bug Fixes Ignore invalid STOMP frame #28444 v5.2.21.RELEASE...
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Bumps [jackson-databind](https://github.com/FasterXML/jackson) from 2.9.4 to 2.12.7.1. Commits See full diff in compare view [](https://docs.github.com/en/github/managing-security-vulnerabilities/about-dependabot-security-updates#about-compatibility-scores) Dependabot will resolve any conflicts with this PR as long as you don't alter...
Hi, Thanks for a very comprehensive resource! I have compiled [a list](https://www.dropbox.com/s/b6ny549bs8mb6f9/tcga_clinical_tissue_diagnosis.v18_20190708.tsv?dl=0) of unique diagnoses assigned to TCGA patients/samples. I was wondering whether there exist a mapping somewhere between OncoTree...
Not really an issue, or question. Just a shameless ad. I just developed an R package to access OncoTree's API. If there are any R users among you, please give...
I tried to load study to my dockerized cBioportal. Since there's no cancer type info in cbioportal mysql database, I have to load it manually as [this instruction](https://docs.cbioportal.org/5.1-data-loading/data-loading/file-formats#cancer-type). In this...
I got few questions from one of the OncoKB users who started to use OncoTree as their ontology resource. I think these questions are frequently asked and useful for our...
Bumps httpclient from 4.5.3 to 4.5.13. [](https://docs.github.com/en/github/managing-security-vulnerabilities/about-dependabot-security-updates#about-compatibility-scores) Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a...
When going from ICDO to oncotree code, the ontology-to-ontology mapping tool is unable to combine ICDO Topography and Morphology codes to select a more specific oncotree code. So, for example,...
Looking at the ontology code mapping file using the github browser: https://github.com/cBioPortal/oncotree/blob/master/scripts/ontology_to_ontology_mapping_tool/ontology_mappings.txt there appears to be unexpected characters for the record for oncotree code GBASC in the NCIT column. This...
Niki suggested to add a download button in the page to allow the user to download the data as text file. Need to make a call to api/tumor_types.txt