• PCAP

  • Referenced in 3 articles [sw17185]
  • missing overlaps caused by sequencing errors. Repetitive regions of reads are detected on the basis...
  • abSNP

  • Referenced in 1 article [sw33988]
  • abSNP: RNA-Seq SNP calling in repetitive regions via abundance estimation. Variant calling, in particular ... able to successfully make calls on repetitive gene regions by exploiting the quality scores ... different genes, in order to identify which repetitive copy a particular read is sampled from ... method offers significant performance gains on repetitive regions in simulated data. In particular, the algorithm...
  • Ragout

  • Referenced in 1 article [sw23971]
  • help assemblers resolve ambiguities in repetitive regions of the genome. However, their popularity in contemporary...
  • CloudRS

  • Referenced in 1 article [sw34375]
  • when dealing with reads from repetitive regions. We also illustrate several probabilistic measures we introduce...
  • dipSPAdes

  • Referenced in 2 articles [sw19477]
  • advantage of divergence between haplomes in repetitive genome regions to resolve them and construct longer...
  • Sniper

  • Referenced in 1 article [sw33991]
  • primarily because of redundant genomic regions, such as interspersed repetitive elements and paralogous genes, present...
  • BISMA

  • Referenced in 2 articles [sw23507]
  • analysis of individual clones from unique and repetitive sequences. Background: Bisulfite sequencing is a popular ... methylation patterns at high resolution. A region of interest is targeted by PCR and about ... supports for the first time analysis of repetitive sequences. Conclusions: BISMA works highly automated...
  • PipMaker

  • Referenced in 7 articles [sw17257]
  • features such as exons of genes and repetitive elements, and colors can be used ... that can be inferred (e.g., protein-coding regions andcis-regulatory elements) depend on the level...
  • Maple

  • Referenced in 5040 articles [sw00545]
  • The result of over 30 years of cutting...
  • Mathematica

  • Referenced in 5883 articles [sw00554]
  • Almost any workflow involves computing results, and that...
  • Matlab

  • Referenced in 12074 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • R

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

  • Referenced in 1620 articles [sw00825]
  • Sage (SageMath) is free, open-source math software...
  • Scilab

  • Referenced in 166 articles [sw00834]
  • Scilab includes hundreds of mathematical functions. It has...
  • MACSYMA

  • Referenced in 716 articles [sw01209]
  • Macsyma is a general purpose symbolic-numerical-graphical...
  • STAR

  • Referenced in 12 articles [sw02515]
  • STAR: ultrafast universal RNA-seq aligner. Motivation: Accurate...
  • SeDuMi

  • Referenced in 1175 articles [sw04002]
  • SeDuMi is a Matlab toolbox for solving optimization...
  • SDPT3

  • Referenced in 609 articles [sw04009]
  • This software is designed to solve conic programming...
  • CPLEX

  • Referenced in 2551 articles [sw04082]
  • IBM® ILOG® CPLEX® offers C, C++, Java, .NET...
  • EISPACK

  • Referenced in 486 articles [sw04208]
  • EISPACK is a collection of Fortran subroutines that...