• CNAmet

  • Referenced in 3 articles [sw08175]
  • package that facilitates the integrative analysis of high-throughput copy number, expression and methylation data...
  • bcbio-nextgen

  • Referenced in 1 article [sw28867]
  • practice pipelines for fully automated high throughput sequencing analysis. You write a high level configuration...
  • iDNA-Methyl

  • Referenced in 19 articles [sw22423]
  • predictor will become a very useful high-throughput tool for basic research and drug development ... many other DNA-related problems and genome analysis...
  • p3d

  • Referenced in 1 article [sw23587]
  • module for structural bioinformatics. Background: High-throughput bioinformatic analysis tools are needed to mine...
  • Prnam-PC

  • Referenced in 18 articles [sw22422]
  • predictor will become a useful high-throughput tool for identifying methylation sites ... other RNA-related problems and conduct genome analysis. A user-friendly Web server for pRNAm...
  • Oases

  • Referenced in 3 articles [sw17027]
  • expression levels. Motivation: High-throughput sequencing has made the analysis of new model organisms more...
  • ProDiGe

  • Referenced in 3 articles [sw12407]
  • molecular biology. While traditional linkage analysis and modern high-throughput techniques often provide long lists...
  • MATHT

  • Referenced in 1 article [sw27453]
  • current software/algorithms for high-throughput sequence data analysis are not user-friendly. We developed MATHT...
  • HiTC

  • Referenced in 1 article [sw28003]
  • Bioconductor R package HiTC: High Throughput Chromosome Conformation Capture analysis. The HiTC package was developed ... explore high-throughput ’C’ data such as 5C or Hi-C. Dedicated R classes ... quality controls, normalization, visualization, and further analysis are also provided...
  • GrainScan

  • Referenced in 1 article [sw37072]
  • generally costly and very low throughput. Grain colour analysis is generally difficult to perform with...
  • Turtle

  • Referenced in 2 articles [sw20511]
  • first step in the analysis of high-throughput sequencing data. Infrequent k -mers are assumed...
  • plateCore

  • Referenced in 1 article [sw14265]
  • Analysis of high-throughput flow cytometry data using platecore. Flow cytometry (FCM) software packages from ... open platform for development of new analysis tools and methods. We created plateCore ... processing and analysis of plate-based data sets from high-throughput FCM screening experiments easier ... cytometry expert using the FlowJo data analysis software package (TreeStar, USA). We show that...
  • ReactomeFIViz

  • Referenced in 1 article [sw25625]
  • pathway and network-based data analysis. High-throughput experiments are routinely performed in modern biological ... performing pathway- and network-based data analysis in a biologically intuitive and user-friendly ... substantial power to analyze intrinsically noisy high-throughput experimental data to find biologically relevant information...
  • Minfi

  • Referenced in 6 articles [sw23478]
  • flexible and comprehensive bioconductor package for the analysis of infinium DNA methylation microarrays. MOTIVATION ... array (the ’450k’ array) provides a high-throughput assay to quantify DNA methylation (DNAm ... most widely used DNAm high-throughput measurement technology over the next several years. RESULTS: Here ... statistical techniques for the analysis of DNAm data. The software is structured to easily adapt...
  • Phyloseq

  • Referenced in 8 articles [sw13730]
  • Graphics of Microbiome Census Data. Background: The analysis of microbial communities through DNA sequencing brings ... packages), but with limited support for high throughput microbiome census data...
  • MMG

  • Referenced in 4 articles [sw29328]
  • many interesting cases (such as high-throughput proteomics and metabolomics), only very partial observations ... mixture model clustering. Analysis of our model results on quantitative high-throughput proteomic data leads...
  • Eoulsan

  • Referenced in 1 article [sw12022]
  • MapReduce algorithm dedicated to high-throughput sequencing data analysis. Eoulsan allows users to easily...
  • sva

  • Referenced in 6 articles [sw21306]
  • package SVA: Surrogate Variable Analysis. The sva package contains functions for removing batch effects ... other unwanted variation in high-throughput experiment. Specifically, the sva package contains functions ... unknown sources of variation in high-throughput experiments (Leek and Storey 2007 PLoS Genetics ... using surrogate variables in differential expression analysis have been shown to reduce dependence, stabilize error...
  • GENECODIS

  • Referenced in 3 articles [sw13895]
  • analysis of concurrent annotations provides significant information for the biologic interpretation of high-throughput experiments...
  • RReportGenerator

  • Referenced in 2 articles [sw24626]
  • from routine statistical analysis using R. With the establishment of high-throughput (HT) screening methods...