• Bioconductor

  • Referenced in 312 articles [sw04205]
  • provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses...
  • iPromoter-2L

  • Referenced in 23 articles [sw24788]
  • become a very useful high throughput tool for genome analysis...
  • CellProfiler

  • Referenced in 17 articles [sw18751]
  • CellProfiler: image analysis software for identifying and quantifying cell phenotypes. Biologists can now prepare ... system designed for flexible, high-throughput cell image analysis, CellProfiler. CellProfiler can address a variety...
  • DEseq

  • Referenced in 57 articles [sw10344]
  • DESeq: Differential gene expression analysis based on the negative binomial distribution. Estimate variance-mean dependence ... count data from high-throughput sequencing assays and test for differential expression based...
  • IMA

  • Referenced in 5 articles [sw23822]
  • package for high-throughput analysis of Illumina’s 450K Infinium methylation data. The Illumina Infinium...
  • DRAGON

  • Referenced in 14 articles [sw00220]
  • well as for similarity analysis and high-throughput screening of molecule databases. Dragon...
  • iDNA-Prot

  • Referenced in 16 articles [sw22410]
  • become a useful high throughput tool for large-scale analysis of DNA-binding proteins...
  • HTSeq

  • Referenced in 8 articles [sw16898]
  • Python framework to work with high-throughput sequencing data. Motivation: A large choice of tools ... many standard tasks in the analysis of high-throughput sequencing (HTS) data. However, once ... preprocesses RNA-Seq data for differential expression analysis by counting the overlap of reads with...
  • iDHS-EL

  • Referenced in 10 articles [sw22426]
  • become a very useful high throughput tool for genome analysis...
  • iMiRNA-PseDPC

  • Referenced in 10 articles [sw22425]
  • become a useful high throughput tool for genome analysis particularly in dealing with large-scale...
  • FAMT

  • Referenced in 32 articles [sw11123]
  • package FAMT: Factor Analysis for Multiple Testing (FAMT) : simultaneous tests under dependence in high-dimensional ... multiple testing procedures for high-throughput data as proposed by Friguet ... variables is modeled by a factor analysis structure. The number of factors considered...
  • SWIFFT

  • Referenced in 47 articles [sw11588]
  • confusion.” We provide a detailed security analysis of concrete instantiations, and give a high-performance ... inherent parallelism of the FFT algorithm. The throughput of our implementation is competitive with that...
  • NAST

  • Referenced in 3 articles [sw13835]
  • multiple sequence alignment server for comparative analysis of 16S rRNA genes. Microbiologists conducting surveys ... such an alignment has inhibited high-throughput analysis. It was hypothesized that an online tool...
  • GOSemSim

  • Referenced in 3 articles [sw16934]
  • have became important basis for many bioinformatics analysis approaches. GOSemSim is an R package ... easily integrated into high-throughput analysis pipelines. Availability: GOSemSim is released under the GNU General...
  • SHARP

  • Referenced in 7 articles [sw33337]
  • massively parallel architectures, high-throughput processing can expedite this analysis and provide microscopists with immediate ... providing state-of-the-art high-throughput ptychography reconstructions for the coming era of diffraction...
  • Babelomics

  • Referenced in 6 articles [sw36144]
  • functional annotation and analysis of groups of genes in high-throughput experiments. We present Babelomics ... functional analysis of groups of genes in high-throughput experiments, which includes ... interpro motifs, KEGG pathways, Swiss-Prot keywords, analysis of predicted transcription factor binding sites, chromosomal...
  • gaga

  • Referenced in 4 articles [sw06101]
  • Implements the GaGa model for high-throughput data analysis, including differential expression analysis, supervised gene...
  • mixOmics

  • Referenced in 29 articles [sw09508]
  • These data may come from high throughput technologies, such as omics data (e.g. transcriptomics, metabolomics ... data) that require an integrative or joint analysis. However, mixOmics can also be applied...
  • svaseq

  • Referenced in 4 articles [sw14010]
  • correct statistical inference when performing high-throughput genomic analysis. We introduced surrogate variable analysis...