• JIVE

  • Referenced in 22 articles [sw09511]
  • objects. In particular, The Cancer Genome Atlas (TCGA) includes data from several diverse genomic technologies...
  • TCGA-assembler

  • Referenced in 4 articles [sw27301]
  • software for retrieving and processing TCGA data. TCGA-Assembler is an open-source, freely available ... assembles, and processes public The Cancer Genome Atlas (TCGA) data, to facilitate downstream data analysis...
  • miRTarBase

  • Referenced in 4 articles [sw29360]
  • gene expression profiles from The Cancer Genome Atlas (TCGA) are integrated to provide an effective...
  • FastDMA

  • Referenced in 1 article [sw35032]
  • methylation datasets from The Cancer Genome Atlas (TCGA) and find many differentially methylated genomic sites...
  • RTCGA

  • Referenced in 1 article [sw29363]
  • genome atlas data integration. The Cancer Genome Atlas (TCGA) Data Portal provides a platform ... data sets generated by TCGA. It contains clinical information, genomic characterization data, and high level ... tumor genomes. The key is to understand genomics to improve cancer care. RTCGA package offers...
  • Omics Pipe

  • Referenced in 1 article [sw26801]
  • processing of data from The Cancer Genome Atlas (TCGA). Omics Pipe provides researchers with...
  • SurvBoost

  • Referenced in 1 article [sw23772]
  • with survival outcome in The Cancer Genome Atlas (TCGA) study. In addition, a detailed hands...
  • Pathomic Fusion

  • Referenced in 1 article [sw41413]
  • cell carcinoma datasets from the Cancer Genome Atlas (TCGA), which contains paired whole-slide image...
  • M3C

  • Referenced in 1 article [sw41193]
  • real expression data from The Cancer Genome Atlas (TCGA). For testing M3C, we developed clusterlab...
  • TCGAretriever

  • Referenced in 0 articles [sw15866]
  • package TCGAretriever. The Cancer Genome Atlas (TCGA) is a program aimed at improving our understanding...
  • TANRIC

  • Referenced in 0 articles [sw25994]
  • Cancer Genome Atlas (TCGA), we have developed ”The Atlas of Noncoding RNAs in Cancer” (TANRIC...
  • R

  • Referenced in 9969 articles [sw00771]
  • R is a language and environment for statistical...
  • STAR

  • Referenced in 14 articles [sw02515]
  • STAR: ultrafast universal RNA-seq aligner. Motivation: Accurate...
  • Bioconductor

  • Referenced in 319 articles [sw04205]
  • Bioconductor provides tools for the analysis and comprehension...
  • oligo

  • Referenced in 9 articles [sw06102]
  • (R) A package to analyze oligonucleotide arrays (expression/SNP/tiling/exon...
  • WEKA

  • Referenced in 305 articles [sw06435]
  • WEKA: Waikato Environment for Knowledge Analysis. WEKA is...
  • edgeR

  • Referenced in 53 articles [sw06936]
  • edgeR: a Bioconductor package for differential expression analysis...
  • RankProd

  • Referenced in 6 articles [sw07961]
  • RankProd: Rank Product method for identifying differentially expressed...
  • Soap

  • Referenced in 38 articles [sw08915]
  • SOAP: short oligonucleotide alignment program. We have developed...
  • Sweave

  • Referenced in 45 articles [sw10621]
  • Sweave is a tool that allows to embed...