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Hi thank you for bringing this very interesting tool/framework in bridging TCGA and DepMap data to the community!
Can I get your help in better understanding the consideration/rational of including…
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Thank you for the fantastic work!
This method seems promising and I'd love to try it out; however, I am not sure how to normalize the data from RNASeq.
What was the source of the BRCA data and h…
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**Describe the bug**
1. When `grid_order` changes from `C` to `F`, `grid_local_coordinates` do not change accordingly.
2. Furthermore, `grid_local_coordinates` do not match the order of the sample …
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I am finding it challenging to convert the RaggedExperiment to a more MAF-like
tabular form. Am I missing something? Maybe we should add a component with
MAF content, perhaps as a dense GRanges, n…
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The query below gives results when posted directly to the Multiomics Big GIM I KP (containing gene-gene expression correlation relations) TRAPI endpoint: https://api.bte.ncats.io/v1/smartapi/520851943…
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On Wed, Aug 30, 2017 at 11:10 PM, Nuno Bandeira wrote:
Hi Raja,
It was great to touch base today - I'm attaching the [Nature Biotech paper](https://www.ncbi.nlm.nih.gov/pubmed/27504778) I menti…
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Hi!
I have the following error when installing cgpVcf 2.02 (but also with previous releases) in a Ubuntu 14.04 machine:
```
# Failed test 'use Sanger::CGP::Vcf;'
# at t/1_pm_compile.t line 66.
# …
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Hey!
Thank you for creating such a useful tool, specially for Bulk RNA.
I've been testing the modules out, and I'd like to know if the 3 files mentioned in the TCGA tutorial could be made avail…
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_WARNING: long post below. I'm hoping to help us build a shared conceptual framework to guide ongoing API design, and given the underlying complexity and the number of different priors, don't know how…
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Since we have mutations that are point sites or are more generally in certain domains or other large features of the protein. For example, MD Anderson creates these for each gene and they are customi…