| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Software and Algorithms | ||
| TCGA data portal | (Collins, 2007) | https://portal.gdc.cancer.gov/ |
| TCGAbiolinks pipeline | (Colaprico et al., 2016) | https://bioconductor.org/packages/release/bioc/html/TCGAbiolinks.html |
| R/Bioconductor | R packages | https://www.bioconductor.org/ |
| cBioportal for cancer genomics | (Cerami et al., 2012; Gao et al., 2013) | https://www.cbioportal.org/ |
| FireHose Broad GDAC | Broad Institute of MIT & Harvard | https://gdac.broadinstitute.org/ |
| recount2 | (Collado-Torres et al., 2017) | http://www.nature.com/articles/nbt.3838 |
| Pharos | (Nguyen et al., 2017) | PMID: 27903890 |
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