• ARVO

  • Referenced in 14 articles [sw00049]
  • Fortran package for computing the solvent accessible surface area and the excluded volume of overlapping ... exact algorithms for computing the solvent accessible surface area and the excluded volume of macromolecules.We...
  • CGAL

  • Referenced in 335 articles [sw00118]
  • Open Source Project is to provide easy access to efficient and reliable geometric algorithms ... library. CGAL is used in various areas needing geometric computation, such as: computer graphics, scientific ... generation (2D Delaunay mesh generation and 3D surface and volume mesh generation, skin surfaces), geometry...
  • RSARF

  • Referenced in 5 articles [sw22442]
  • forest method, RSARF, to predict residue accessible surface area from protein sequence information. The training ... useful for prediction of residue solvent accessibility from protein sequence without using structural information...
  • FreeSASA

  • Referenced in 3 articles [sw21619]
  • open source C library for solvent accessible surface area calculations. Calculating solvent accessible surface areas...
  • SPIDER2

  • Referenced in 2 articles [sw25872]
  • Package to Predict Secondary Structure, Accessible Surface Area, and Main-Chain Torsional Angles by Deep ... predicted properties are secondary structure and accessible surface area (ASA) representing local and nonlocal structural ... coefficient between predicted and actual solvent accessible surface area, 19° and 30° for mean absolute ... prediction of local structure and solvent accessible surface area. The method is implemented...
  • NSOL

  • Referenced in 2 articles [sw21620]
  • numerical calculation program of molecular surface area, volume, and solvation energy. In computer simulation ... that calculate solvation energy using solvent accessible surface area; ASP (atomic solvation parameters) model ... GB/SA. In these methods, as solvent accessible surface area calculate fast, solvation energy could...
  • HSEpred

  • Referenced in 3 articles [sw25088]
  • compared with other measures such as accessible surface area, residue depth and contact number. However ... prediction webserver and supplementary materials are accessible at http://sunflower.kuicr.kyoto-u.ac.jp/ sjn/hse...
  • Naccess

  • Referenced in 8 articles [sw12485]
  • naccess 2.1.1 Atomic Solvent Accessible Area Calculation Software: Developed at UCL by Simon Hubbard ... this program calculates absolute and relative surface accessibilities of protein and nucleic acid structures ... buried and accessible residues. naccess is a program that automatically performs accessible area calculation...
  • Prodepth

  • Referenced in 0 articles [sw25085]
  • complements the information provided by conventional accessible surface area (ASA) and describes to what extent...
  • ADmoND

  • Referenced in 1 article [sw31429]
  • Office Excel file and some can be accessed or modified through dialogues. Graphical user interface ... environmental parameters like temperature, effective sensing (adsorbent) area and reaction chamber volume and composition ... adsorbate species with different molecular projection areas (some calculations are coded for adsorbate particles that ... time evolutions of adsorbed particles on the surface for system defined...
  • Coq

  • Referenced in 1751 articles [sw00161]
  • Coq is a formal proof management system. It...
  • hypre

  • Referenced in 248 articles [sw00426]
  • hypre is a software library for the solution...
  • LAPACK

  • Referenced in 1586 articles [sw00503]
  • LAPACK is written in Fortran 90 and provides...
  • Mathematica

  • Referenced in 5703 articles [sw00554]
  • Almost any workflow involves computing results, and that...
  • Matlab

  • Referenced in 11496 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • QEPCAD

  • Referenced in 273 articles [sw00752]
  • QEPCAD B: A program for computing with semi...
  • R

  • Referenced in 7624 articles [sw00771]
  • R is a language and environment for statistical...
  • SageMath

  • Referenced in 1507 articles [sw00825]
  • Sage (SageMath) is free, open-source math software...
  • AMBER

  • Referenced in 53 articles [sw01333]
  • AmberTools is a set of programs for biomolecular...
  • BLAS

  • Referenced in 475 articles [sw03216]
  • Low-level utilities common to many mathematical software...