Analysis update: add DMG, EGFR to methyl mol subtype

[zzgeng]

Purpose/implementation Section

What scientific question is your analysis addressing?

Add DMG, EGFR to methyl mol subtype

What was your approach?

Add DMG, EGFR to methyl mol subtype but maintain the previous molecular subtype results as DMG, H3 K28

What GitHub issue does your pull request address?

#448

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

Which areas should receive a particularly close look?

HGG module output and histologies.tsv

Is there anything that you want to discuss further?

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)?

Table

What is your summary of the results?

Reproducibility Checklist

• The dependencies required to run the code in this pull request have been added to the project Dockerfile.
• This analysis has been added to continuous integration.

Documentation Checklist

• This analysis module has a README and it is up to date.
• This analysis is recorded in the table in analyses/README.md and the entry is up to date.
• The analytical code is documented and contains comments.

[AntoniaChroni]

I run the all bash files on EC2 and it run with no problems. All relative files were generated with integrated changes.

• plots/HGG_stranded.pdf: it seems there is no grey/ no HGAT_NO_HISTONE_BRAF, is that right?