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Error in the importer is creating duplicated sample with different IDs. Bug reported by user:
https://groups.google.com/forum/#!topic/cbioportal/dmMG9QrNDCw
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We want to be able to generically apply different data dictionaries. If we reuse them, we have to refactor them to remove any cancer-specific hard code. Actually extract components from data portal.
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I propose that we add these sources now:
**YES:**
- [x] http://myvariant.info/, variant data
- [x] http://www.drugbank.ca/, drug & drug target data
- [x] https://www.ebi.ac.uk/chembl/, database …
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Reported by end user:
I’m trying to reproduce your disease free survival plots but am unclear how your pipelines select from multiple relapse events for the same patients. For example patient TCGA…
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Reported by end user:
I’m trying to reproduce your disease free survival plots but am unclear how your pipelines select from multiple relapse events for the same patients. For example patient TCGA…
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For the level at which Datamed works, the appropriate level of granularity at which to represent TCGA is more likely to be at the level of the 32 cancers that were studied.
https://cancergenome.nih.g…
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I've been using glamor. it's great. styled-components is a thing and it's cool but all our styles are already objects.
I've implemented something that's working quite nicely for us--would something…
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A small number of samples are missing. For example,
```
mutations grep("TCGA-EE-A2GK", unique(unlist(mutations[, "Tumor_Sample_Barcode"])))
integer(0)
```
On the GDC Portal homepage, pasting…
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[Good Day_comparing datasets.docx](https://github.com/BioinformaticsFMRP/TCGAbiolinks/files/1075361/Good.Day_comparing.datasets.docx)
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l think the urls that you are trying to load through your bash scripts don't work anymore? I could be wrong though.