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  • VirusMentha
  • Referenced in 1 article [sw29352]
  • VirusMentha: a new resource for virus-host protein interactions. Viral infections often cause diseases...

  • R
  • Referenced in 8359 articles [sw00771]
  • R is a language and environment for statistical...

  • Graphviz
  • Referenced in 81 articles [sw01283]
  • Graphviz is open source graph visualization software. Graph...

  • Bioconductor
  • Referenced in 298 articles [sw04205]
  • Bioconductor provides tools for the analysis and comprehension...

  • gplots
  • Referenced in 6 articles [sw04555]
  • gplots: Various R Programming Tools for Plotting Data...

  • PLINK
  • Referenced in 61 articles [sw04581]
  • PLINK is a free, open-source whole genome...

  • gcrma
  • Referenced in 95 articles [sw06104]
  • Bioconductor/R package gcrma: Background Adjustment Using Sequence Information...

  • edgeR
  • Referenced in 46 articles [sw06936]
  • edgeR: a Bioconductor package for differential expression analysis...

  • igraph
  • Referenced in 150 articles [sw07066]
  • The igraph software package for complex network research...

  • WGCNA
  • Referenced in 17 articles [sw07123]
  • R package WGCNA: Weighted Correlation Network Analysis. Functions...

  • BoolNet
  • Referenced in 14 articles [sw07365]
  • BoolNet: Generation, reconstruction, simulation and analysis of synchronous...

  • Cytoscape
  • Referenced in 69 articles [sw09080]
  • Cytoscape: A Software Environment for Integrated Models of...

  • COPASI
  • Referenced in 62 articles [sw12253]
  • COPASI: biochemical network simulator. COPASI is a software...

  • Dynagraph
  • Referenced in 13 articles [sw13656]
  • The Dynagraph libraries are written in platform-neutral...

  • BioNet
  • Referenced in 5 articles [sw13828]
  • The BioNet package provides an extensive framework for...

  • KEGG
  • Referenced in 252 articles [sw13866]
  • KEGG: Kyoto Encyclopedia of Genes and Genomes. KEGG...

  • RedeR
  • Referenced in 2 articles [sw14646]
  • RedeR: R/Bioconductor package for representing modular structures, nested...

  • Cellnoptr
  • Referenced in 5 articles [sw15114]
  • CellNOpt (from CellNetOptimizer; a.k.a. CNO) is a software...

  • iPath
  • Referenced in 3 articles [sw16937]
  • iPath: interactive exploration of biochemical pathways and networks...

  • TopHat
  • Referenced in 22 articles [sw17157]
  • TopHat2: accurate alignment of transcriptomes in the presence...