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response %
filter(~ project.project_id=='TCGA-BRCA' & samples.sample_type=='Metastatic') %>%
GenomicDataCommons::select(c(default_fields(cases()), 'samples.sample_type')) %>%
response_all()
…
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## Context
**Issue type** bug report
**Operating system** windows and linux
**Platform** 64
**OpenSlide version**:
**Slide format** SVS
## Details
In some SVS images, openslide.objective…
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As mentioned in TT-WISMD 2023-05-05 by Tom GDC should use Facets.
Faceting offers filter options for search result lists. Due to increasing metadata amount it is important to have additional possibi…
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PureCN has a dependency on optparse which is unstated:
```
$ Rscript PureCN.R
Error in library(optparse) : there is no package called ‘optparse’
```
jbedo updated
10 months ago
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https://www.cell.com/cancer-cell/fulltext/S1535-6108(18)30379-9
add as generic assay?
Test Study: https://triage.cbioportal.mskcc.org/study/summary?id=acc_tcga_pan_can_atlas_2018
jjgao updated
11 months ago
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Hi,
this is seems to be a great resource. This is rather a question and not a issue report. May I ask how/when exactly you compiled the information for the TCGA dataset? In your publication you wri…
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Hi, may I ask how you got the 213 samples for the cancer typing task? Below is a screenshot of what I got when I access the TCGA-ESCA from the GDC portal. After filtering out the slides that are label…
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where can i download the TCGA-BRCA dataset
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Hi all,
I am trying to extract the rrpa data for several of the cohorts but noticed in the files names that the data generation time seems a bit old (20160128):
```R
curatedTCGAData("acc", vers…
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when i parse out data by improve sample ID i can't distinguish the model type
![Screenshot 2023-10-06 at 4 39 58 PM](https://github.com/PNNL-CompBio/candleDataProcessing/assets/1847866/45b731f8-5478-…