• Footprinter

  • Referenced in 10 articles [sw09003]
  • FootPrinter: a program designed for phylogenetic footprinting. Phylogenetic footprinting is a method for the discovery ... this purpose, making use of the phylogenetic relationships among the homologous sequences in order ... more accurate predictions. The software is called FootPrinter and is available at http://bio.cs.washington.edu/software.html....
  • tracker2

  • Referenced in 1 article [sw15710]
  • Tracker2 - Alignment Concictency and Footprint Detection: Phylogenetic footprinting and consistent sets of local aligments ... local pairwise alignments arises naturally in phylogenetic footprinting, a technique used to identify regulatory elements...
  • CONREAL

  • Referenced in 2 articles [sw18497]
  • orthologous sequences and phylogenetic footprinting approaches have become popular for the recognition of conserved...
  • TFExplorer

  • Referenced in 1 article [sw35546]
  • promoter regions, along with their phylogenetic footprinting information. In addition, TFExplorer can search for genes...
  • Macaulay2

  • Referenced in 1658 articles [sw00537]
  • Macaulay2 is a software system devoted to supporting...
  • R

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

  • Referenced in 3041 articles [sw04074]
  • UC Irvine Machine Learning Repository. We currently maintain...
  • MASS (R)

  • Referenced in 286 articles [sw04479]
  • R package MASS: Support Functions and Datasets for...
  • WEKA

  • Referenced in 287 articles [sw06435]
  • WEKA: Waikato Environment for Knowledge Analysis. WEKA is...
  • fastDNAml

  • Referenced in 92 articles [sw06651]
  • fastDNAml is a program for estimating maximum likelihood...
  • rpart

  • Referenced in 129 articles [sw07115]
  • R package rpart: Recursive Partitioning. Recursive partitioning and...
  • PhyloGibbs

  • Referenced in 2 articles [sw09376]
  • PhyloGibbs: A Gibbs sampler incorporating phylogenetic information. We...
  • DIALIGN

  • Referenced in 33 articles [sw12015]
  • DIALIGN: multiple DNA and protein sequence alignment at...
  • ClustalW

  • Referenced in 133 articles [sw12016]
  • CLUSTAL W: improving the sensitivity of progressive multiple...
  • LAGAN

  • Referenced in 17 articles [sw13192]
  • The Lagan Tookit is a set of alignment...
  • MEME

  • Referenced in 14 articles [sw15711]
  • MEME: discovering and analyzing DNA and protein sequence...
  • TRANSFAC

  • Referenced in 73 articles [sw17201]
  • TRANSFAC: an integrated system for gene expression regulation...
  • Genomatix

  • Referenced in 3 articles [sw17384]
  • Genomatix Software Suite. A well-established software bundle...