• TINKER

  • Referenced in 10 articles [sw04095]
  • derivatives, simple free energy perturbation facility, normal mode analysis, minimization in Cartesian, torsional or rigid...
  • CASTOR

  • Referenced in 9 articles [sw09186]
  • CASTOR: normal-mode analysis of resistive MHD plasmas. The CASTOR (complex Alfvén spectrum of toroidal ... code computes the entire spectrum of normal modes in resistive MHD for general tokamak configurations...
  • TAF

  • Referenced in 85 articles [sw07492]
  • programs. TAF supports forward and reverse mode of AD and Automatic Sparsity Detection ... Jacobians. TAF normalizes the code and applies a control flow analysis. TAF applies an intraprocedural...
  • Bio3d

  • Referenced in 4 articles [sw15706]
  • mode analysis, principal component analysis of heterogeneous structure data, and correlation network analysis from normal...
  • GENESIS

  • Referenced in 13 articles [sw02283]
  • element method for static, normal modes, direct and modal frequency analysis, random response analysis, heat...
  • iMod

  • Referenced in 4 articles [sw35118]
  • iMod: multipurpose normal mode analysis in internal coordinates. Results: Here, we present a new versatile...
  • ENCoM

  • Referenced in 2 articles [sw16880]
  • stability. ENCoM is a coarse-grained normal mode analysis method recently introduced that unlike previous ... first time a coarse-grained normal mode analysis method to predict the effect of single...
  • BOSS

  • Referenced in 2 articles [sw27537]
  • calculations cover energy minimizations, normal mode analysis, and conformational searching with the OPLS force fields...
  • NRGTEN

  • Referenced in 1 article [sw36446]
  • extensible toolkit for coarse-grained normal mode analysis of proteins, nucleic acids, small molecules ... their complexes. Coarse-grained normal mode analysis (NMA) is a fast computational technique to study...
  • RedMD

  • Referenced in 1 article [sw32713]
  • perform molecular dynamics simulations and normal mode analysis of reduced models of proteins, nucleic acids ... potential energy functions. Normal mode analysis tool is available for elastic or anisotropic network models...
  • ElNemo

  • Referenced in 1 article [sw22480]
  • ElNemo: a normal mode web server for protein movement analysis ... generation of templates for molecular replacement. Normal mode analysis (NMA) is a powerful tool ... using at most two low-frequency normal modes. Applications of NMA cover wide areas...
  • GANM

  • Referenced in 1 article [sw08551]
  • Modes), that combines genetic algorithm and normal mode analysis in order to achieve protein-ligand ... binding site. The methodology uses normal modes to account for the global conformational changes...
  • TAMkin

  • Referenced in 0 articles [sw19002]
  • program for the calculation and analysis of normal modes, thermochemical properties and chemical reaction rates ... VASP can be analyzed. The normal-mode analysis can be performed using a broad variety...
  • SULISO

  • Referenced in 1 article [sw20620]
  • code developed for analysis of calculated harmonic frequencies and of normal modes in terms...
  • PyVCI

  • Referenced in 0 articles [sw25042]
  • surface in normal mode coordinates. It includes harmonic normal coordinate analysis and vibrational configuration interaction ... surfaces are available. Force fields in normal mode coordinates are obtained from the PyPES library...
  • ROTOR

  • Referenced in 1 article [sw19892]
  • Aeroelastic Analysis For Rotorcraft In Flight Or In A Wind Tunnel (ROTOR). The testing ... normal mode representation of the test module, strut, and balance is used. The aeroelastic analysis...
  • SYVA

  • Referenced in 1 article [sw28312]
  • arbitrary molecule. To carry out the symmetry analysis, a program has been written, which ... molecule, revealing the symmetry properties of normal modes of vibration and symmetrizing the structure...
  • reliability

  • Referenced in 1 article [sw25368]
  • combined generation and transmission system normally includes the independent outages of generators, transformers and transmission ... system. It performs failure modes and effect analysis and provides a concise and orderly description...
  • LncmiRSRN

  • Referenced in 1 article [sw34139]
  • LncmiRSRN: identification and analysis of long non-coding RNA related miRNA sponge regulatory network ... from miRNA control, the target mRNAs are normally up-regulated by the sponge lncRNAs ... lncRNA-mRNA regulatory relationships show a rewired mode between different cancers, and a minority ... state in cancers. Functional enrichment and survival analysis indicate that the identified differential and conserved...