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- |{{#vardefine:app|c-wap}} |{{#vardefine:url|https://github.com/CFSAN-Biostatistics/C-WAP}}2 KB (281 words) - 13:16, 15 August 2022
- |{{#vardefine:app|netcdf-c}}2 KB (278 words) - 14:47, 19 August 2022
- NCBI C++ Toolkit provides free, portable, public domain libraries with no restrict3 KB (306 words) - 14:25, 19 August 2022
File:2012-04-19-Parallel Processing-C Taylor.ppt (1.42 MB) - 16:10, 19 April 2012
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- ...n-us/intel-parallel-studio-xe Intel Compiler Suite] provides Fortran and C/C++ compilers and is preferred compiler option on hipergator. The [https://gcc.gnu.org GNU Compiler Suite] provides Fortran and C/C++ compilers.24 members (0 subcategories, 0 files) - 17:51, 27 September 2023
- mpicc ( C source) mpiCC (C++ source)3 KB (297 words) - 12:01, 26 August 2022
- ...the 'glue code' required for the above target languages to call into the C/C++ code. SWIG can also export its parse tree in the form of XML and Lisp s-e3 KB (414 words) - 20:04, 21 August 2022
- ...ng dilution Hi-C, in situ Hi-C, DNase Hi-C, Micro-C, capture-C, capture Hi-C or HiChip data. ..., Heard E., Barillot E. HiC-Pro: An optimized and flexible pipeline for Hi-C processing. Genome Biology 2015, 16:259 doi:10.1186/s13059-015-0831-x3 KB (432 words) - 18:17, 15 August 2022
- "Boost provides free peer-reviewed portable C++ source libraries. We emphasize libraries that work well with the C++ Standard Library. Boost libraries are intended to be widely useful, and u3 KB (350 words) - 13:06, 15 August 2022
- |{{#vardefine:url|http://xerces.apache.org/#xerces-c}} ...or parsing, generating, manipulating, and validating XML documents. Xerces-C++ is faithful to the XML 1.0 and 1.1 recommendations and many associated st3 KB (306 words) - 21:29, 6 December 2019
- ...n rates from population genetic data. The package is available either as C/C++ source code.2 KB (296 words) - 17:09, 10 June 2022
- The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Java, and Ada, as well as libraries for these languages (libstdc+2 KB (251 words) - 16:55, 15 August 2022
- ...ython interface provides a high-level yet efficient API to use most of the C++ interface with ease.3 KB (325 words) - 14:13, 15 August 2022
- a) module load intel/2020.0.166 openmpi/4.1.5 netcdf-c/4.9.2 netcdf-f/4.6.1 metis/5.2.1 cmake/3.26.4 petsc/3.19.4 ...export NETCDF_CFLAGS="-I/apps/intel/2020.0.166/openmpi/4.1.5/netcdf-c/4.9.2/include\2 KB (310 words) - 14:05, 17 April 2024
- 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
- 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.inpcrd1 KB (171 words) - 21:18, 5 December 2022
- 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 5:12 KB (276 words) - 16:49, 15 August 2022
- |{{#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
- ...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
- The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Java, Ada, and Go, as well as libraries for these languages (libs2 KB (298 words) - 20:44, 15 August 2022
- ...-{if is_array($color)}--><!--{foreach from=$color item=c}-->color=%23<!--{$c|escape:'urlpathinfo'}-->&<!--{/foreach}--><!--{else}-->color=%23<!--{$c3 KB (481 words) - 19:34, 16 May 2016
- annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba and3 KB (406 words) - 14:47, 15 August 2022
- ...GPU acceleration of HPC modeling and simulation applications with standard C++ and Fortran, OpenACC® directives, and CUDA®. GPU-accelerated math libra3 KB (334 words) - 17:24, 19 August 2022
- ...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. 203 KB (329 words) - 21:22, 6 December 2019
- ...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 ca3 KB (369 words) - 16:29, 15 October 2023
- The method is implemented as a C/C++ commandline program.2 KB (259 words) - 21:49, 28 February 2023
- ...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 do2 KB (269 words) - 13:11, 4 May 2020
- 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 Intensive2 KB (269 words) - 14:33, 12 August 2022
- 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 in2 KB (269 words) - 20:11, 24 August 2022
- ...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," Proce3 KB (364 words) - 15:25, 19 August 2022
- ...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
- |{{#vardefine:app|c-wap}} |{{#vardefine:url|https://github.com/CFSAN-Biostatistics/C-WAP}}2 KB (281 words) - 13:16, 15 August 2022
- ...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 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
- ...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 p2 KB (289 words) - 19:33, 13 June 2023
- ...ek, T., Leman, J. K., Berenberg, D., Vatanen, T., Chandler, C., Taylor, B. C., Fisk, I. M., Vlamakis, H., Xavier, R. J., Knight, R., Cho, K., & Bonneau,2 KB (290 words) - 19:30, 10 March 2023
- PLINK/SEQ is an open-source C/C++ library for working with human genetic variation data. The specific focus2 KB (296 words) - 20:25, 12 August 2022
- J. A. Anderson, C. D. Lorenz, and A. Travesset. General purpose molecular dynamics simulation ...D. Nguyen, J. A. Anderson, P. Liu, F. Spiga, J. A. Millan, D. C. Morse, S. C. Glotzer. Strong scaling of general-purpose molecular dynamics simulations5 KB (607 words) - 15:40, 6 June 2022
- ...e that the Fortran module man not have all supporting binaries that netcdf-c module has.3 KB (402 words) - 14:56, 12 March 2024
- The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General2 KB (300 words) - 17:27, 15 August 2022
- ...des several hundreds of computer vision algorithms. Written in optimized C/C++, the library can take advantage of multi-core processing. Enabled with Op2 KB (283 words) - 21:31, 6 December 2019
- ...M., Mirza, G., Butler, H., Clouston, P., Basset, A.S., Seller, A., Holmes, C., and Ragoussis, J. QuantiSNP: an Objective Bayes Hidden-Markov Model to de2 KB (297 words) - 20:29, 12 August 2022
- ...te (JTS). As such, it aims to contain the complete functionality of JTS in C++. This includes all the OpenGIS Simple Features for SQL spatial predica3 KB (307 words) - 17:05, 15 August 2022
- ...orage and worklist servers. DCMTK is is written in a mixture of ANSI C and C++. It comes in complete source code and is made available as "open source"3 KB (304 words) - 20:31, 10 June 2022
- pbmm2 is a SMRT C++ wrapper for minimap2's C API. Its purpose is to support native PacBio in- and output, provide sets o3 KB (303 words) - 20:08, 31 May 2022
- ...olkit for performance analysis of parallel programs written in Fortran, C, C++, Java, Python. ...h instrumentation of functions, methods, basic blocks, and statements. All C++ language features are supported including templates and namespaces. The A4 KB (581 words) - 22:37, 24 October 2022
- Hoffmann S, Otto C, Kurtz S, Sharma CM, Khaitovich P, Vogel J, Stadler PF, Hackermueller J: "F Hoffmann S, Otto C, Doose G, Tanzer A, Langenberger D, Christ S, Kunz M, Holdt L, Teupser D, H3 KB (406 words) - 22:30, 21 August 2022
- ...ary fully written from scratch in pure ANSI C. It is designed to offer for C programmers common data structures with powerful algorithms, and hidden imp3 KB (305 words) - 15:37, 6 June 2022
- Rueden, C. T., Schindelin, J., Hiner, M. C., DeZonia, B. E., Walter, A. E., Arena, E. T., & Eliceiri, K. W. (2017). Im3 KB (308 words) - 16:31, 20 October 2022
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data ...embly of allele-aware, chromosomal scale autopolyploid genomes based on Hi-C data. Nature Plants, doi:10.1038/s41477-019-0487-8 (2019).3 KB (299 words) - 12:35, 12 August 2022
- * C * C++3 KB (322 words) - 19:19, 15 August 2022
- | C || icc || ''icc compiler_options example.c'' | C++ || icpc || ''icpc compiler_options -o example.exe example.cxx''5 KB (612 words) - 18:04, 27 September 2023
- ...n: Dudchenko et al., De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds. Science, 2017. ...A.P., et al. (2017). De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds. Science eaal3327. Published online ahea3 KB (328 words) - 17:51, 10 June 2022
- ...rnals.org/content/early/2014/10/22/bioinformatics.btu704.short Fuchsberger C, Abecasis GR, Hinds DA. minimac2: faster genotype imputation. Bioinformatic Howie B, Fuchsberger C, Stephens M, Marchini J, and Abecasis GR. Fast and accurate genotype imputa3 KB (332 words) - 20:11, 18 August 2022
- ...evelopers can launch compute kernels written using a limited subset of the C programming language on a GPU. ...wget -q https://raw.github.com/smistad/OpenCL-Getting-Started/master/main.c3 KB (365 words) - 17:52, 19 August 2022
- Dohm JC, Lottaz C, Borodina T, Himmelbauer H SHARCGS, a fast and highly accurate short-read a Dohm JC, Lottaz C, Borodina T, Himmelbauer H Substantial biases in ultra-short read data sets3 KB (313 words) - 22:42, 21 August 2022
- ...le, D. E.; Vega Thurber, R. L.; Knight, R.; Beiko, R. G.; and Huttenhower, C. Nature Biotechnology, 1-10. 8 2013.]3 KB (344 words) - 18:28, 10 June 2022
- ...many useful tools for analyzing ChIP-Seq, GRO-Seq, RNA-Seq, DNase-Seq, Hi-C and numerous other types of functional genomics sequencing data sets.3 KB (330 words) - 18:19, 15 August 2022
- maqindex -i -c consensus.cns all.map; maqview -c consensus.cns all.map3 KB (377 words) - 19:47, 12 August 2022
- .... Moriarty, R. Oeffner, R. J. Read, D. C. Richardson, J. S. Richardson, T. C. Terwilliger and P. H. Zwart. Acta Cryst. D66, 213-221 (2010).3 KB (325 words) - 18:12, 21 August 2022
- BioLite is a bioinformatics framework written in Python/C++ that automates the collection and reporting of diagnostics, tracks proven * A C++ library 'seqio' for efficient I/O of large NGS data files3 KB (362 words) - 12:54, 15 August 2022
- [http://mbe.oxfordjournals.org/content/24/2/412.abstract?etoc C. Ané, B. Larget, D.A. Baum, S.D. Smith, A. Rokas (2007). Bayesian estimati ...l.pdf?ijkey=BIwQBlPEqeEiojQ&keytype=ref B. Larget, S.K. Kotha, C.N. Dewey, C. Ané (2010). BUCKy: Gene tree / species tree reconciliation with the Bayes3 KB (386 words) - 13:15, 15 August 2022
- ...Elastix, making it available in languages like C++, Python, Java, R, Ruby, C# and Lua.3 KB (365 words) - 15:30, 3 June 2022
- Mamba is a reimplementation of the conda package manager in C++. core parts of mamba are implemented in C++ for maximum efficiency3 KB (429 words) - 20:16, 3 June 2022
- 1. C. Kobayashi, J. Jung, Y. Matsunaga, T. Mori, T. Ando, K. Tamura, M. Kamiya, 2. J. Jung, T. Mori, C. Kobayashi, Y. Matsunaga, T. Yoda, M. Feig, and Y. Sugita, WIREs Comput. Mo3 KB (368 words) - 17:51, 3 April 2024
- VBScript, VBA, JavaScript, .NET (C#/VB), Java, JSP, C++, PHP, Perl, Python,3 KB (397 words) - 13:26, 15 August 2022
- Edgar, Robert C. - Search and clustering orders of magnitude faster than BLAST Author : Edgar, Robert C.4 KB (559 words) - 17:19, 22 August 2022
- [1] H. Wang, J. W. Suh, S. Das, J. Pluta, C. Craige, P. Yushkevich, "Multi-atlas segmentation [2] H. Wang, S. R. Das, J. W. Suh, M. Altinay, J. Pluta, C. Craige, B. B. Avants, and P. A. Yushkevich,3 KB (390 words) - 20:31, 24 August 2022
- ...Number of cores per task. I.e., the value given to the -cpus-per-task or -c sbatch options. Not set unless one of those options given.1 KB (236 words) - 17:43, 5 March 2024
- [ref2] J. C. Thomas, A. Van der Ven, Finite-temperature properties of strongly anharmon [ref4] A. Van der Ven, J. C. Thomas, Q. Xu, J. Bhattacharya “Linking the electronic structure of soli4 KB (453 words) - 13:20, 15 August 2022
- ...J., Lugo C. S. B., Elliott T. A., Ware D., Peterson T., Jiang N.✉, Hirsch C. N.✉ and Hufford M. B.✉ (2019). Benchmarking Transposable Element Annot4 KB (474 words) - 21:27, 14 September 2023
- ...liquid, solid, or gaseous state. It is a open source software, written in C++ and developed at Sandia laboratory. It can be used to model atomic, polym ...CMAKE_INSTALL_PREFIX=<target_lammps_dir> -C ../cmake/presets/all_on.cmake -C ../cmake/presets/nolib.cmake ../cmake5 KB (731 words) - 20:30, 6 April 2024
- #Looks good, let's terminate the request with Ctrl+C> ^C8 KB (1,354 words) - 18:36, 9 February 2024
- ...Cheatham, III, T. Darden, H. Gohlke, R. Luo, K.M. Merz, Jr., A. Onufriev, C. Simmerling, B. Wang and R. Woods. The Amber biomolecular simulation progra ...-J. Hsieh, G. Cui, D.R. Roe, D.H. Mathews, M.G. Seetin, R. Salomon-Ferrer, C. Sagui, V. Babin, T. Luchko, S. Gusarov, A. Kovalenko, and P.A. Kollman (205 KB (736 words) - 20:09, 5 February 2024
- ...The shutdown is scheduled from Aug. 9th through Aug. 15th, after Summer B/C and before fall classes start. The system will be back to normal operation1 KB (213 words) - 21:07, 14 July 2021
- ...tdown is tentatively scheduled during the week of August 9, after Summer B/C and before fall classes start. We will communicate the exact dates once equ1 KB (212 words) - 16:47, 23 August 2022
- ...orBoard 2.4.0 at '''<nowiki>http://localhost:6006/</nowiki>''' (Press CTRL-C to quit)2 KB (231 words) - 21:03, 12 December 2023
- ===cuda_bm.c=== {{#fileAnchor: cuda_bm.c}}12 KB (1,540 words) - 17:09, 21 December 2022
- c) Copy remote e/n/d/r/c/s/q> n6 KB (763 words) - 20:07, 30 October 2023
- ...eate as many terminal windows in the screen session as needed with 'Ctrl+a c' key combination. See [[Screen]] documentation. Ctrl+a c4 KB (719 words) - 13:36, 2 January 2023
- Fastest Fourier Transform in the West, is a C library for computing the Discrete Fourier Transform (DFT) in one or more d2 KB (223 words) - 16:41, 15 August 2022
- Mach2VCF is a C++ tool to convert MaCH files to VCF files.2 KB (242 words) - 14:49, 10 June 2022
- Validation suite for Variant Call Format (VCF) files, implemented using C++112 KB (249 words) - 17:27, 22 August 2022
- DosageConvertor is a C++ tool to convert dosage files (in VCF format) from Minimac3 to ther format2 KB (252 words) - 15:04, 10 June 2022
- SimTK OpenSim C++ libraries and command-line applications, and Java/Python wrapping.2 KB (247 words) - 17:57, 19 August 2022
- OpenSlide is a C library that provides a simple interface to read whole-slide images2 KB (248 words) - 21:22, 6 December 2019
- ...arch Computing. To run CellProfiler in batch mode, you should include the -c or --run-headless option. Also, you want to use CELLPROFILER_USE_XVFB="1" -c, --run-headless Run headless (without the GUI)8 KB (910 words) - 21:29, 21 December 2022
- Widely used C++ template library for task parallelism.2 KB (259 words) - 21:29, 6 December 2019
- TALESF is a C library for identifying potential binding sites for transcription activator2 KB (256 words) - 21:29, 6 December 2019
- ...e fast all-in-one preprocessing for FastQ files. This tool is developed in C++ with multithreading supported to afford high performance.2 KB (256 words) - 15:23, 15 August 2022
- C++ implementation of the Google logging module2 KB (269 words) - 17:10, 15 August 2022
- C++ library and its applications to generate and process accurate consensus s2 KB (268 words) - 17:48, 15 August 2022
- ...nome informatics) combined into a single binary named gt. It is based on a C library named “libgenometools” which consists of several modules.2 KB (266 words) - 18:58, 12 August 2022
- Networks. It is a C++ template library providing efficient implementations2 KB (268 words) - 15:41, 6 June 2022
- ...family of optimation algorithms for species tree inference implemented in C++ (including ASTRAL-Pro & Weighted ASTRAL).2 KB (267 words) - 17:50, 28 August 2023
- ...t provides functions for manipulating Unicode strings and for manipulating C strings according to the Unicode standard.2 KB (269 words) - 15:49, 10 June 2022
- IGoR is a C++ software designed to infer V(D)J recombination related processes from seq2 KB (271 words) - 13:52, 14 May 2020
- ...s.biomedcentral.com/articles/10.1186/s12920-018-0342-1 Tony Kuo and Martin C Frith and Jun Sese and Paul Horton. EAGLE: Explicit Alternative Genome Like2 KB (270 words) - 22:30, 26 August 2020
- QT is a cross-platform application and UI framework for developers using C++ or QML, a CSS & JavaScript like language.2 KB (257 words) - 20:57, 21 August 2022
- ...oup.com/bioinformatics/article/31/16/2741/321286 Marghoob Mohiyuddin, John C. Mu, Jian Li, Narges Bani Asadi, Mark B. Gerstein, Alexej Abyzov, Wing H. W2 KB (277 words) - 21:21, 6 December 2019
- IMa2p is a parallel implementation of IMa2, using OpenMPI-C++ - a Bayesian MCMC based method for inferring population demography under2 KB (277 words) - 21:21, 6 December 2019
- C. Than, D. Ruths, L. Nakhleh (2008) PhyloNet: A software package for analyzi2 KB (263 words) - 21:23, 6 December 2019
- ...(MIP), and other related problems. It is a set of routines written in ANSI C and organized in the form of a callable library.2 KB (272 words) - 17:11, 15 August 2022
- ...ead-safe, but, unlike MPFUN2020, is available with both a Fortran-90 and a C++ high-level interface.2 KB (271 words) - 17:47, 15 August 2022