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# D3b Bixu Repository Template | ||
# D3b CBTN Summit Workshop | ||
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Use this template to bootstrap a new D3b bixu repository | ||
### CBTN Multi-Omic Subtyping | ||
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### Badges | ||
This repo provides the necessary setup and analysis scripts to demonstrate the use of CBTN data for multi-omic clustering within the Cavatica Cloud Environment. | ||
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Update the LICENSE badge to point to the new repo location on GitHub. | ||
Note that the LICENSE badge will fail to render correctly unless the repo has | ||
been set to **public**. | ||
In this workshop, we will perform the following: | ||
1. Open a new cloud-based RStudio instance within Cavatica's Data Studio | ||
2. Clone the d3b-cbtn-summit github repository using the terminal within RStudio | ||
3. Review the modules within the repository and their key functionality. | ||
4. Prepare epigenomic, transcriptomic, and alternatively splice transcriptome data for high-grade astrocytomas (HGATs) as input to multi-omic clustering. | ||
5. Run intNMF matrix factorization for multi-omic clustering using the three data layers outlined in (4). | ||
6. Evaluate novel subtypes in relation to known disease subtypes and survival characteristics. | ||
7. Evaluate cluster-specific differential expression patterns. | ||
8. Time permitting, evaluate cluster-specific differential methylation and differentially methylated pathways. | ||
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Add additional badges for CI, docs, and other integrations as needed within the | ||
`<p>` tag next to the LICENSE. | ||
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### Repo Description | ||
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Update the repositories description with a short summary of the repository's | ||
intent. | ||
Include an appropriate emoji at the start of the summary. | ||
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Add a handful of tags that summarize topics relating to the repository. | ||
If the repo has a documentation site or webpage, add it next to the repository | ||
description. |