• Bismark

  • Referenced in 5 articles [sw23504]
  • data which performs both read mapping and methylation calling in a single convenient step ... context and enables bench scientists to visualize and interpret their methylation data soon after...
  • CodonO

  • Referenced in 2 articles [sw17252]
  • minimization, mRNA stability, codon context, tRNA richness, CpG suppression, DNA methylation, and tissue or organ...
  • Repitools

  • Referenced in 1 article [sw20385]
  • gene expression context, finding regions of differential methylation/binding, BayMeth for quantifying methylation...
  • Bisulfighter

  • Referenced in 3 articles [sw23508]
  • sample, and to detect differentially methylated regions (DMRs) between paired samples. Although numerous tools have ... evaluated on simulated data with various mC contexts, read qualities, sequencing depths and DMR lengths...
  • ParticleMDI

  • Referenced in 1 article [sw35255]
  • approach for performing cluster analysis in a context where observational units have data arising from ... gene expression, copy number variation, DNA methylation, protein expression and microRNA data. We identify...
  • Mathematica

  • Referenced in 6343 articles [sw00554]
  • Almost any workflow involves computing results, and that...
  • Matlab

  • Referenced in 13488 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • R

  • Referenced in 9832 articles [sw00771]
  • R is a language and environment for statistical...
  • Bioconductor

  • Referenced in 320 articles [sw04205]
  • Bioconductor provides tools for the analysis and comprehension...
  • LIBSVM

  • Referenced in 1185 articles [sw04879]
  • LIBSVM is a library for Support Vector Machines...
  • GATK

  • Referenced in 17 articles [sw12019]
  • The genome analysis toolkit: a MapReduce framework for...
  • C4.5

  • Referenced in 1162 articles [sw12176]
  • C4.5: programs for machine learning. (C4.5 has been...
  • KEGG

  • Referenced in 275 articles [sw13866]
  • KEGG: Kyoto Encyclopedia of Genes and Genomes. KEGG...
  • Samtools

  • Referenced in 22 articles [sw14583]
  • Samtools is a suite of programs for interacting...
  • Keras

  • Referenced in 183 articles [sw15491]
  • Keras: Deep Learning library for Theano and TensorFlow...
  • FastQC

  • Referenced in 8 articles [sw16946]
  • FastQC: A quality control tool for high throughput...
  • FASTX

  • Referenced in 2 articles [sw17090]
  • The FASTX-Toolkit is a collection of command...
  • Trimmomatic

  • Referenced in 6 articles [sw17091]
  • Trimmomatic: a flexible trimmer for Illumina sequence data...
  • DAVID

  • Referenced in 63 articles [sw17292]
  • The DAVID Gene Functional Classification Tool: a novel...