• libgapmis

  • Referenced in 2 articles [sw24065]
  • gaps varies greatly, with many performing poorly or not allowing them at all. The seed ... quality prefix of a short read--the seed--an important problem is to find ... reads are rather short and that the gap occurrence frequency observed in various studies...
  • Pash

  • Referenced in 1 article [sw34370]
  • makes use of gapped k-mer alignment, a non-seed based comparison method, which...
  • Repseek

  • Referenced in 3 articles [sw13190]
  • approximate repeats in DNA sequences allowing for gaps and a substitution matrix and using ... implementation of a two-steps method (seed detection followed by their extensions) that detects those...
  • PASS

  • Referenced in 3 articles [sw35276]
  • with other available programs. PASS performs fast gapped and ungapped alignments of short DNA sequences ... index of the genomic positions of ‘seed’ words (typically 11 and 12 bases) as well ... performing three steps: (1) it finds matching seed words in the genome; (2) for every ... both for sensitivity and speed. For instance, gap alignment is achieved hundreds of times faster...
  • LPRES

  • Referenced in 1 article [sw27983]
  • Presented Groups. The LPRES Package defines new GAP objects to work with L-presented groups ... relations given as iterates of finitely many seed relations by a finite set of endomorphisms...
  • VSEARCH

  • Referenced in 1 article [sw34388]
  • USEARCH which by default uses a heuristic seed and extend aligner. This usually results ... recall) with VSEARCH, especially for alignments with gaps...
  • GAP

  • Referenced in 3189 articles [sw00320]
  • GAP is a system for computational discrete algebra...
  • Magma

  • Referenced in 3315 articles [sw00540]
  • Computer algebra system (CAS). Magma is a large...
  • Maple

  • Referenced in 5373 articles [sw00545]
  • The result of over 30 years of cutting...
  • Matlab

  • Referenced in 13544 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • R

  • Referenced in 9969 articles [sw00771]
  • R is a language and environment for statistical...
  • AUTO

  • Referenced in 943 articles [sw01059]
  • AUTO is a software for continuation and bifurcation...
  • SNOPT

  • Referenced in 551 articles [sw02300]
  • SNOPT: An SQP algorithm for large-scale constrained...
  • CUDA

  • Referenced in 1325 articles [sw03258]
  • The NVIDIA® CUDA® Toolkit provides a comprehensive development...
  • PETSc

  • Referenced in 1584 articles [sw04012]
  • The Portable, Extensible Toolkit for Scientific Computation (PETSc...
  • CPLEX

  • Referenced in 2773 articles [sw04082]
  • IBM® ILOG® CPLEX® offers C, C++, Java, .NET...
  • FLUENT

  • Referenced in 440 articles [sw04263]
  • FLUENT is a Computational Fluid Dynamics (CFD) code...
  • KernSmooth

  • Referenced in 978 articles [sw04586]
  • Kernel smoothing refers to a general methodology for...