• MIBPB

  • Referenced in 54 articles [sw08106]
  • rigorously enforces the solution and flux continuity conditions at the dielectric interface between the biomolecule ... second-order convergence, that is, the accuracy increases four times when the mesh size ... mapping technique that builds a Green’s function approach to analytically resolve the singular charge ... using the Krylov subspace (KS) techniques. Condition numbers of the MIBPB matrices are significantly reduced...
  • Algorithm 919

  • Referenced in 58 articles [sw07350]
  • condition. The matrix function is a linear combination of the matrix exponential and other functions ... exponential (the so-called ϕ-functions). Such computations are the major computational burden ... function by constructing a Krylov subspace using Arnoldi or Lanczos iteration and projecting the function ... Krylov subspace to reach the required accuracy. We implement this algorithm in the matlab function...
  • D-ADMM

  • Referenced in 22 articles [sw28440]
  • functions are strongly convex, although in practice, convergence is observed even when these conditions ... algorithms to achieve a given accuracy level. Algorithms with low communication requirements are important...
  • Algorithm 955

  • Referenced in 4 articles [sw17442]
  • gamma function is more efficient due to conditional branching within each vector. The accuracy...
  • FPINNs

  • Referenced in 21 articles [sw40570]
  • mean-squared error in initial/boundary conditions is minimized with respect to the NN parameters ... equations (fractional ADEs), and we demonstrate their accuracy and effectiveness in solving multi-dimensional forward ... constructing the residual in the loss function using both automatic differentiation for the integer-order...
  • ComFLOW

  • Referenced in 1 article [sw24962]
  • method, with improved accuracy through a local-height-function (LHF) approach. Numerical reflections are prevented ... specially designed absorbing boundary conditions (ABC). Gravity-consistent density averaging for twophase flow prevents spurious...
  • AEGIS-K

  • Referenced in 1 article [sw02809]
  • electromagnetic perturbations, with the quasineutrality condition taken into account. A transform method is implemented ... computed Z-function (i.e., the plasma dispersion function) to be used to reduce the integration ... numerical accuracy in determining the wave-particle resonance effects. Periodic boundary condition along the whole...
  • RangeLab

  • Referenced in 1 article [sw38042]
  • simple tool to validate the accuracy of floating-point or fixed-point computations. Given intervals ... range of the outputs of simple functions with conditionals and loops as well...
  • odprism

  • Referenced in 1 article [sw11940]
  • sampling designs for e.g. reaction norm studies. Functions allow users to vary the sampling design ... also allow users to vary the parameter conditions used to generate the data. Subsequently ... datasets is assessed in terms of the accuracy and the precision of estimates of fixed...
  • KLERC

  • Referenced in 1 article [sw37381]
  • predict conditional expectiles, is fitted by minimizing an asymmetric square loss function on the training ... reformulates the Lagrangian function of SVER as a differentiable convex function over the nonnegative orthant ... more computationally efficient while yielding similar prediction accuracy...
  • DFT-FE

  • Referenced in 2 articles [sw33910]
  • formulation of the Kohn–Sham DFT energy functional that is discretized using a higher-order ... periodic, semi-periodic and periodic boundary conditions. We discuss the main aspects of the code ... communication costs and latency. We demonstrate the accuracy of DFT-FE by comparing the energies...
  • Biomine

  • Referenced in 2 articles [sw28409]
  • contain large amounts of data concerning the functions and associations of genes and proteins. Integration ... types are weighted to optimize link prediction accuracy. We also propose a novel method ... results show that under favorable conditions, Biomine can also perform well when no such information ... focus on human genetics. Some of its functionalities are available in a public query interface...
  • MYRIAD

  • Referenced in 0 articles [sw17698]
  • free parameters give a good accuracy and speed for simulations of star clusters ... initial conditions, show excellent agreement. Simulations of King models with an initial mass-function, similar ... expected from previous work. Finally, the code accuracy becomes comparable to and even better than...
  • ccSVM

  • Referenced in 1 article [sw35176]
  • bioinformatics: for instance, to predict the function of a gene or protein, the disease state ... classifying biological data, due to their high accuracy, their ability to deal with structured data ... population structure, age or gender or experimental conditions in Support Vector Machine classification. Results...
  • Conrad

  • Referenced in 1 article [sw23028]
  • comparative gene predictor based on semi-Markov conditional random fields (SMCRFs). Unlike the best standalone ... Conrad is discriminatively trained to maximize annotation accuracy. In addition, unlike the best annotation pipelines ... information by encoding them as feature functions. On Cryptococcus neoformans, configuring Conrad to reproduce...
  • UniCon3D

  • Referenced in 0 articles [sw34253]
  • united-residue representation and performs experimentally motivated conditional conformational sampling via stepwise synthesis and assembly ... composite physics and knowledge-based energy function for de novo protein structure prediction. The proposed ... sample lower energy conformations with higher accuracy than traditional random sampling in a small benchmark...
  • MetaDisorder

  • Referenced in 1 article [sw16901]
  • under specific conditions, e.g. upon interaction with another molecule, while others function in a permanently ... specific well-defined structure defines the function of the protein. As of December 2011, approximately ... approaches, such as utilizing evolutionary information, energy functions, and various statistical and machine learning methods ... final consensus was weighted by the accuracy of the methods. We have also developed...
  • FASTSP

  • Referenced in 1 article [sw38911]
  • including phylogeny estimation and protein structure and function prediction. Different alignments on the same ... compared, sometimes in order to assess the accuracy of alignment methods or to infer ... comparisons of large alignments under lower memory conditions (at most 4 GB of main memory...
  • eLBM

  • Referenced in 2 articles [sw31183]
  • viscosities, and (III) viscosity-independent, nonslip boundary conditions. The drawback of the MRT model ... with eLBM in terms of robustness and accuracy for a variety of flow domains including ... residual non-wetting-phase saturations (as a function of the capillary number) to data reported...