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• Federated Account Request
  Type: <code>ssh-keygen -t ed25519 -C "My HiPerGator Key"</code> C:\> ssh-keygen -t ed25519 -C "My HiPerGator Key"
  4 KB (634 words) - 17:53, 12 September 2023
• Amber Job Sample Scripts
  sander -O -i amber.in -o amber.log -p amber.prmtop -c amber.inpcrd mpiexec sander.MPI -O -i amber.in -o amber.log -p amber.prmtop -c amber.inpcrd
  1 KB (171 words) - 21:18, 5 December 2022
• Freesasa
  FreeSASA is a C library and C++ command line tool for calculating Solvent Accessible Surface Area (SASA) Simon Mitternacht (2016) FreeSASA: An open source C library for solvent accessible surface area calculations. F1000Research 5:1
  2 KB (276 words) - 16:49, 15 August 2022
• Fanc
  |{{#vardefine:url|https://fan-c.readthedocs.io/}} FAN-C provides a pipeline for analysing Hi-C data starting at mapped paired-end sequencing reads.
  2 KB (281 words) - 15:56, 22 March 2024
• Asaq
  ...possible tree topology. To run ASAQ it is necessary to have installed the C++ linear algebra library Armadillo ...//arma.sourceforge.net/armadillo_joss_2016.pdf Armadillo: a template-based C++ library for linear algebra]. Journal of Open Source Software, Vol. 1, pp.
  3 KB (374 words) - 15:10, 1 June 2022
• GNU Compiler Collection
  The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Java, Ada, and Go, as well as libraries for these languages (libs
  2 KB (298 words) - 20:44, 15 August 2022
• Doxygen
  annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba and
  3 KB (406 words) - 14:47, 15 August 2022
• Nvhpc
  ...GPU acceleration of HPC modeling and simulation applications with standard C++ and Fortran, OpenACC® directives, and CUDA®. GPU-accelerated math libra
  3 KB (334 words) - 17:24, 19 August 2022
• ProtExcluder
  ...e, G. D., Hunagel, D. E., Lei, J., Achawanantakun, R., Jiao, D., Lawrence, C. J., Ware, D., Shiu, S-H., Childs, K. L., Sun, Y., Jiang, N, Yandell, M. 20
  3 KB (329 words) - 21:22, 6 December 2019
• Juicer
  ...stq raw data files and command line tools for feature annotation on the Hi-C maps. The juicer pipeline submits jobs to the cluster and then exits. It ca
  3 KB (369 words) - 16:29, 15 October 2023
• Ngsremix
  The method is implemented as a C/C++ commandline program.
  2 KB (259 words) - 21:49, 28 February 2023
• Dlib
  ...ing machine learning algorithms and tools for creating complex software in C++ to solve real world problems. See http://dlib.net for the main project do
  2 KB (269 words) - 13:11, 4 May 2020
• Armadillo
  Armadillo is a high quality C++ linear algebra library, aiming towards a good balance between speed and e ...://arma.sourceforge.net/armadillo_nicta_2010.pdf Armadillo: An Open Source C++ Linear Algebra Library for Fast Prototyping and Computationally Intensive
  2 KB (269 words) - 14:33, 12 August 2022
• SALSA
  A tool to scaffold long read assemblies with Hi-C Ghurye, J., Pop, M., Koren, S., Bickhart, D., & Chin, C. S. (2017). Scaffolding of long read assemblies using long range contact in
  2 KB (269 words) - 20:11, 24 August 2022
• SUNDIALS
  ...marsh, P. N. Brown, K. E. Grant, S. L. Lee, R. Serban, D. E. Shumaker, and C. S. Woodward, "SUNDIALS: Suite of Nonlinear and Differential/Algebraic Equa * R. Serban and A. C. Hindmarsh, "CVODES: the Sensitivity-Enabled ODE Solver in SUNDIALS," Proce
  3 KB (364 words) - 15:25, 19 August 2022
• ImageMagick
  ...re (C), MagickWand (C), ChMagick (Ch), ImageMagickObject (COM+), Magick++ (C++), JMagick (Java), L-Magick (Lisp), Lua, NMagick (Neko/haXe), Magick.NET (
  3 KB (380 words) - 18:46, 15 August 2022
• C-wap
  |{{#vardefine:app|c-wap}} |{{#vardefine:url|https://github.com/CFSAN-Biostatistics/C-WAP}}
  2 KB (281 words) - 13:16, 15 August 2022
• GRACKLE
  ...ry for astrophysical simulations and models. Grackle has interfaces for C, C++, Fortran, and Python codes and provides:
  2 KB (294 words) - 17:18, 15 August 2022
• BERTopic
  BERTopic is a topic modeling technique that leverages transformers and c-TF-IDF to create dense clusters allowing for easily interpretable topics wh [https://zenodo.org/record/4719700 BERTopic: Leveraging BERT and c-TF-IDF to create easily interpretable topics.]
  2 KB (283 words) - 14:00, 27 May 2022
• Panaroo
  ...dair N, Ruis C, Weimann A, Horesh G, Lees JA, Gladstone RA, Lo S, Beaudoin C, Floto RA, Frost SDW, Corander J, Bentley SD, Parkhill J. 2020. Producing p
  2 KB (289 words) - 19:33, 13 June 2023

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