Data release v21

[kgaonkar6]

Purpose/implementation Section

What scientific question is your analysis addressing?

Updated data download script for v21 along with documentation.

What was your approach?

• Updated broad_histology and short_histology in pbta-histologies-base.tsv as per #1155
• Added pathology_diagnosis == Subependymal Giant Cell Astrocytoma (SEGA) to LGAT subtyping #1154
• cancer_group and harmonized_diagnosis updated in pbta-histologies.tsv as per #1149
  • Ganglioglioma and Glial-neuronal tumors were added to LGAT subtyping but integrated_diagnosis was not accurately updated in previous release
  • Additionally latest mapping file for pathology_diagnosis == "Other" was used to correspond to terms in files used in #1155
  • Updated CNV interpretation as per #1160

Finally, uploaded pbta-histologies.tsv and pbta-histologies-base.tsv and release-notes.md to release-v21-20210820 and testing s3 buckets.

What GitHub issue does your pull request address?

1052

Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.

Which areas should receive a particularly close look?

Are all changes documented?

Is there anything that you want to discuss further?

NA

Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?

Yes

Results

What types of results are included (e.g., table, figure)?

documentation

What is your summary of the results?

• v21 release with updated Glial-neuronal( total 24) , Ganglioglioma ( total 95) and SEGA(6 from updated pathology_diagnosis inclusion ) molecular_subtypes, integrated_diganosis, harmonized_diagnosis and cancer_groups.

Data Release Checklist

• [x] Is the table in doc/data-file-descriptions.md up to date?
• [x] Is doc/data-format.md up to date?
• [x] Is doc/release-notes.md up to date?
• [x] Is download-data.sh up to date?
• [x] Was download-data.sh tested and did it complete without error?

[kgaonkar6]

Updated inrelease-v21-20210820 and testing folder on s3.