• MI-GRAAL

  • Referenced in 3 articles [sw08318]
  • understanding of biological systems. Unlike sequence alignment, network alignment is computationally intractable. Hence, devising efficient ... currently a foremost challenge in computational biology. Results: We introduce a novel network alignment algorithm...
  • MSAProbs

  • Referenced in 3 articles [sw12007]
  • central importance to bioinformatics and computational biology. Although a large number of algorithms for computing...
  • PROMALS3D

  • Referenced in 3 articles [sw16918]
  • with many applications in bioinformatics and computational biology. Accurate MSA construction for divergent proteins remains...
  • repDNA

  • Referenced in 12 articles [sw16473]
  • order to develop powerful computational predictors for identifying the biological features or attributes of DNAs...
  • Bio.Phylo

  • Referenced in 3 articles [sw26799]
  • Biopython, a broad-ranging toolkit for computational biology. Our library, Bio.Phylo, is highly interoperable with...
  • BALL

  • Referenced in 5 articles [sw10727]
  • development times in the field of Computational Molecular Biology and Molecular Modeling. BALL (Biochemical Algorithms...
  • Bio-SPICE

  • Referenced in 10 articles [sw17246]
  • services to aid biological researchers engaged in building computable descriptions of cellular functions. From disparate...
  • OCOTILLO

  • Referenced in 10 articles [sw09292]
  • discovery of compounds that have a certain biological activity. The power of the method comes ... from the interaction between experimental design and computational modeling. Principles of “rational” drug design ... desired biological activity.par This paper presents algorithms, software development and computational complexity analysis for problems...
  • SynBioSS

  • Referenced in 3 articles [sw20854]
  • synthetic biological networks. SynBioSS facilitates computational synthetic biology and consists of three independent components...
  • TinkerCell

  • Referenced in 4 articles [sw20852]
  • techniques from engineering and biology. In this field, computer-aided design (CAD) is necessary ... bridge the gap between computational modeling and biological data. An application named TinkerCell has been...
  • BlenX

  • Referenced in 22 articles [sw12373]
  • computation is an interaction between sub-components. The original development was thought for biological systems...
  • inspyred

  • Referenced in 4 articles [sw29034]
  • free, open source framework for creating biologically-inspired computational intelligence algorithms in Python, including evolutionary...
  • ShaPo

  • Referenced in 4 articles [sw34849]
  • numerous applications from astrophysics to biology or computer graphics. Their properties are especially widely used...
  • StrBioLib

  • Referenced in 2 articles [sw16906]
  • Java library for development of custom computational structural biology applications. Summary: StrBioLib is a library ... classes useful for developing software for computational structural biology research. StrBioLib contains classes to represent...
  • TangleSolve

  • Referenced in 2 articles [sw35764]
  • topological enzymology can use this program to compute and visualize site-specific recombination mechanisms that ... teaching aid for mathematical biology and computational molecular biology courses. Availability: http://bio.math.berkeley.edu/TangleSolve/...
  • Starcode

  • Referenced in 2 articles [sw28773]
  • offers new applications and challenges for computational biology. In many of those applications, sequencing errors ... barcodes, which is a computationally complex problem. Results: Here, we address this challenge and describe...
  • HMMoC

  • Referenced in 2 articles [sw16612]
  • Markov models are widely applied within computational biology. The large data sets and complex models...
  • TMBP

  • Referenced in 2 articles [sw14435]
  • text mining, computer vision and computational biology. This paper introduces a topic modeling toolbox (TMBP...
  • PairClone

  • Referenced in 2 articles [sw30712]
  • major challenges in computational biology. We present PairClone as a new tool to implement this...
  • Beatbox

  • Referenced in 1 article [sw15300]
  • Beatbox - a computer simulation environment for computational biology of the heart. Despite over a century ... diseases, the first presenting symptom is death. Computer simulations of electrical activity in cardiac tissue ... Beatbox, a computer simulation environment for computational biology of the heart—an adaptable and extensible...