Update: Cascade Plots (All genes) - Githubissues

d3b-center / hope-cohort-analysis

Analysis for HOPE cohort

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Update: Cascade Plots (All genes) #90

Closed komalsrathi closed 4 months ago

komalsrathi commented 6 months ago

For the Updated Cascade plots with 2 age groups + tumor only samples + all genes + CNS_region and Cancer_Group (i.e. cancer_group_short) annotations: https://github.com/d3b-center/hope-cohort-analysis/blob/rerun-analyses/analyses/oncoplots/results/cascade_plots_add_tumor_only/cascade_two_age_groups_allgenes.pdf

I made the following modifications in photoshop: cascade_two_age_groups_allgene-MODIF

These changes included the following:

removal of CNS_region (molecular_subtype stays)
Adding the PXA as the additional Cancer_group and adding corresponding color to the annotation column
introducing the flag to molecular_subtype and Cancer_group Could you apply these in the newer version? (I can make the flag in the photoshop)

Additional changes needed:

For the Cancer_group replacing the abbreviations DHG, DMG, HGG, IHG and PXA with: (DHG) Diffuse Hemispheric Glioma (DMG) Diffuse Midline Glioma (HGG) High Grade Glioma (not otherwise specified) (IHG) Infantile High Grade Glioma (PXA) Pleomorphic Xanthoastrocytoma
removal of underscore from the columns annotation and side annotations

Originally posted by @mkoptyra in https://github.com/d3b-center/hope-cohort-analysis/issues/77#issuecomment-1870519014