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  • Intel Compiler Collection
    #REDIRECT [[Intel Compilers and Libraries]]
    43 bytes (5 words) - 16:48, 13 November 2017
  • Category:Library
    Libraries available for use by other software and for development.
    87 members (0 subcategories, 0 files) - 04:37, 29 June 2012
  • Boost
    "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 usable across a broad spectrum of app
    3 KB (350 words) - 13:06, 15 August 2022
  • NCBI C++ Toolkit
    ...tions on use. The tookit includes both general purpose and biotech-related libraries that are constantly developed, maintained and used in real-life production * HPC_{{uc:{{#var:app}}}}_LIB - libraries directory
    3 KB (306 words) - 14:25, 19 August 2022
  • Rolling Upgrade from RHEL7 to RHEL8
    ...luding, but not limited to, NVIDIA GPU drivers, CUDA (12.2), communication libraries, compilers (gcc/12 and intel/2023), and OpenMPI (4.1.5). If you see an error regarding pmix v2, such as "''error while loading shared libraries: libpmix.so.2: cannot open shared object file: No such file or directory''"
    1 KB (164 words) - 16:06, 28 September 2023
  • NetCDF
    NetCDF is a set of software libraries and self-describing, machine-independent data formats that support the crea ...have netcdf-c and netcdf-f environment modules for 4.4.3 and later NetCDF libraries. Please load the appropriate module. Note that the Fortran module man not h
    3 KB (402 words) - 14:56, 12 March 2024
  • ArrayFire
    ...te CUDA or OpenCL kernels. It beats compiler optimizations. It beats other libraries. ArrayFire is the simply best way to accelerate your code. ...e benchmarks compare ArrayFire with several popular CPU-based acceleration libraries, including Intel Math Kernel Library, Intel Integrated Performance Primitiv
    3 KB (315 words) - 14:52, 12 August 2022
  • Nvhpc
    ...aximize performance on common HPC algorithms, and optimized communications libraries enable standards-based multi-GPU and scalable systems programming. Performa
    3 KB (334 words) - 17:24, 19 August 2022
  • Data Science Platform
    ...such as NumPy, SciPy, Pandas, Matplotlib, Scrapy, and BeautifulSoup. These libraries are crucial for data science and are utilized daily by programmers to solve ...[[Rapidsai]]:''' RAPIDS AI is a suite of CUDA-enabled open-source software libraries and APIs by NVIDIA. It accelerates end-to-end data science pipelines by pro
    5 KB (669 words) - 17:22, 10 May 2024
  • SeqPrep
    ...overlap. It is always safest though to save the overlapping procedure for libraries where you have some prior knowledge that a significant portion of the reads
    3 KB (371 words) - 22:38, 21 August 2022
  • R
    ...//support.rc.ufl.edu support ticket] to request installation of additional libraries.''' ...es versus the newest (as of April 2015) release 3.2.0 built with Intel MKL libraries on the HiPerGator1 hardware (AMD Abu Dhabi 2.4GHz CPUs) and the Intel Haswe
    6 KB (981 words) - 20:45, 16 October 2023
  • Running MOOSE
    ...versions of the required libraries. In general, the latest version of the libraries will be used in the latest version of the module. The module listed below i Now run the tests. The test suite in moose/test is important to check if all libraries are correct. You need to exit the dev session to run the tests. If the buil
    4 KB (582 words) - 15:21, 5 May 2023
  • AI Help
    ...its, frameworks and packages for big-data and AI applications. Many of the libraries are included in the CUDA installation on HiPerGator, such as cuDNN. The fol ...computation framework for genomics applications. It builds GPU accelerated libraries, pipelines, and reference AI workflows for genomics research. We have a lic
    6 KB (870 words) - 17:17, 22 April 2024
  • Trim Galore
    ...dapters ('AGATCGGAAGAGC') by default (suitable for both ends of paired-end libraries), but accepts other adapter sequence, too * For MspI-digested RRBS libraries, Trim Galore! performs quality and adapter trimming in two subsequent steps
    4 KB (512 words) - 20:52, 12 August 2022
  • Geopython
    Geopython environment provides a collection of libraries and python modules that support geoprocessing in python.
    2 KB (246 words) - 12:22, 26 August 2022
  • OpenSim
    SimTK OpenSim C++ libraries and command-line applications, and Java/Python wrapping.
    2 KB (247 words) - 17:57, 19 August 2022
  • GCC
    ...des front ends for C, C++, Objective-C, Fortran, Java, and Ada, as well as libraries for these languages (libstdc++, libgcj,...).
    2 KB (251 words) - 16:55, 15 August 2022
  • Libvips
    ...riven, horizontally threaded image processing library. Compared to similar libraries, libvips runs quickly and uses little memory. libvips is licensed under the
    2 KB (255 words) - 20:10, 26 May 2022
  • Mireap
    ...microRNA biogenesis to discover microRNAs from deeply sequenced small RNA libraries.
    2 KB (258 words) - 20:43, 18 August 2022
  • Pytorch
    ...user-friendly front-end, distributed training, and ecosystem of tools and libraries.
    2 KB (257 words) - 15:56, 6 June 2022
  • JCVI
    Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly,
    2 KB (265 words) - 14:30, 4 September 2020
  • Pyhdf
    * HPC_{{uc:{{#var:app}}}}_LIB - libraries directory
    2 KB (267 words) - 15:25, 3 June 2022
  • Pvconv
    some programs including the converter, and libraries supporting reads
    2 KB (265 words) - 21:12, 24 October 2022
  • CDNA Cupcake
    ...of the scripts only require Biopython. For scripts that require additional libraries, it will be specified in documentation.
    2 KB (276 words) - 13:24, 15 August 2022
  • GenomicNeuralnet
    This python code leverages the pybrain and scikit-learn libraries, as well as a built-in artifical neural network implementation to perform g
    2 KB (270 words) - 22:09, 27 August 2020
  • NetCDF-C
    NetCDF is a set of software libraries and self-describing, machine-independent data formats that support the crea
    2 KB (278 words) - 14:47, 19 August 2022
  • SimSeq
    ...l for chimeric reads, and non-biotinylated fragment pull down in mate-pair libraries.
    2 KB (283 words) - 22:59, 21 August 2022
  • Intel MPI
    This module enables the use of the Intel MPI libraries and tools built with
    3 KB (297 words) - 12:01, 26 August 2022
  • MCR
    The MATLAB Runtime is a standalone set of shared libraries that enables the execution of compiled MATLAB applications or components on
    2 KB (292 words) - 18:06, 3 June 2022
  • Preseq
    ...f further sequencing, optimize the sequencing depth, or to screen multiple libraries to avoid low complexity samples.
    3 KB (303 words) - 20:26, 12 August 2022
  • PRINSEQ++
    ...e.pl and uses less RAM thanks to the use of multi-threading and the cboost libraries. It can read and write compressed (gzip) files, drastically reducing the us
    2 KB (298 words) - 18:11, 15 April 2020
  • Radorgminer
    ...is designed to genotype sequence tags found in reduced genomic complexity libraries that originate from the organellar genome(s).
    3 KB (297 words) - 21:55, 6 July 2022
  • Rrnaselector
    ...prokaryotic rRNA sequences from metagenomic and metatrancriptomic shotgun libraries. The rRNASelector selects both bacterial and archaeal rRNA genes (5S, 16S a
    3 KB (304 words) - 21:24, 6 December 2019
  • PHYUTILITY
    ...ations on both trees and data matrices. Makes use of JADE (PEBLS) and JEBL libraries.
    2 KB (296 words) - 20:22, 12 August 2022
  • Mitsuba2
    ...ering system written in portable C++17. It consists of a small set of core libraries and a wide variety of plugins that implement functionality ranging from mat
    3 KB (302 words) - 20:45, 18 August 2022
  • MPACK
    ...nd LAPACK, respectively. It supports various multiple precision arithmetic libraries like GMP, MPFR, and QD, as well as IEEE 754 binary128 (via gcc's extension
    3 KB (307 words) - 17:03, 10 June 2022
  • DCMTK
    DCMTK is a collection of libraries and applications implementing large parts the DICOM standard. It includes s
    3 KB (304 words) - 20:31, 10 June 2022
  • STAR-Fusion
    Reference genome libraries are located in the <code>$HPC_STARFUSION_REF</code> directory. Use them lik
    3 KB (306 words) - 16:02, 22 August 2022
  • CellRanger
    ...perform clustering and gene expression analysis. Cell Ranger 1.2 supports libraries generated by the Chromium Single Cell 3' v1 and v2 reagent kits.
    2 KB (294 words) - 18:24, 12 August 2022
  • GNU Compiler Collection
    ...front ends for C, C++, Objective-C, Fortran, Java, Ada, and Go, as well as libraries for these languages (libstdc++, libgcj,...). GCC was originally written as
    2 KB (298 words) - 20:44, 15 August 2022
  • ATLAS
    libraries.
    3 KB (317 words) - 15:19, 12 August 2022
  • SHAPE-MaP
    ...tly affected by whatever downstream manipulations are required to generate libraries for massively parallel sequencing. Among many uses, SHAPE-MaP makes possibl
    3 KB (325 words) - 17:25, 10 June 2022
  • Redundans
    Program takes as input assembled contigs, sequencing libraries and/or reference sequence and returns scaffolded homozygous genome assembly
    3 KB (332 words) - 21:24, 6 December 2019
  • BESST
    ...R, Arvestad L (2016) "Assembly scaffolding with PE-contaminated mate-pair libraries." Bioinformatics]
    3 KB (332 words) - 12:51, 15 August 2022
  • EMBOSS
    ...ws transparent retrieval of sequence data from the web. Also, as extensive libraries are provided with the package, it is a platform to allow other scientists t
    3 KB (372 words) - 15:01, 15 August 2022
  • HybPiper
    HybPiper was designed for targeted sequence capture, in which DNA sequencing libraries are enriched for gene regions of interest, especially for phylogenetics. Hy
    3 KB (349 words) - 18:36, 10 June 2022
  • Rapidsai
    The RAPIDS suite of open source software libraries and APIs gives you the ability to execute end-to-end data science and analy
    3 KB (348 words) - 21:29, 21 August 2022
  • PHITS
    ...wide energy ranges, using several nuclear reaction models and nuclear data libraries (Iwase et al 2002, Niita et al 2006, Sihver et al 2010 and Niita et al 2010
    3 KB (339 words) - 18:12, 21 August 2022
  • MKL
    This module enables the use of the Intel Math Kernel Libraries (MKL)
    3 KB (378 words) - 19:14, 24 August 2022
  • Galaxy Upgrade Highlights
    ...onsive. Homepage, published workflows, published/saved histories, and data libraries should all load much faster now. Importing data from FTP will also take les
    3 KB (417 words) - 20:34, 18 April 2018
  • PETSc
    ..."Efficient Management of Parallelism in Object Oriented Numerical Software Libraries", Modern Software Tools in Scientific Computing, Pages 163--202, Birkhauser
    3 KB (337 words) - 15:25, 19 August 2022
  • ROOTPy
    ...and efficient development are important, while glueing together low-level libraries for performance-critical tasks. The PyROOT bindings introduced ROOT into th
    3 KB (389 words) - 16:49, 21 August 2022
  • Matlab
    # Set up your environment so that the libraries needed by the compiler can be found. ...mpiled Matlab executable must also find the appropriate dynamically loaded libraries.
    9 KB (1,361 words) - 16:06, 28 November 2023
  • Ncbi-vdb
    The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. Much of the data submit
    3 KB (428 words) - 14:33, 19 August 2022
  • Julia
    ...ia itself, also integrates mature, best-of-breed open source C and Fortran libraries for linear algebra, random number generation, signal processing, and string
    3 KB (412 words) - 20:49, 21 October 2022
  • Wengan
    a spectrum of synthetic mate-pair libraries extracted from raw long-reads. Longer alignments
    4 KB (472 words) - 20:55, 12 August 2022
  • Lazypipe
    ...nix based pipeline for automated assembling and taxonomic profiling of NGS libraries has been developed as a collection of C++, Perl and R scripts.
    4 KB (507 words) - 16:54, 14 December 2022
  • EDTA
    ...me de-novo TE annotation and benchmarking the annotation performance of TE libraries.
    4 KB (474 words) - 21:27, 14 September 2023
  • Nvidia CUDA Toolkit
    ...nt is set up correctly for the use of the CUDA compiler, header files, and libraries. Currently cuda/9.2.88 and cuda/10.0.130 are the only versions supported on
    4 KB (543 words) - 13:44, 20 November 2023
  • Computer Vision
    *'''[[Matlab|Matlab]]''': Matlab provides rich libraries of image processing techniques for image analysis.
    4 KB (563 words) - 20:59, 21 December 2022
  • Applications FAQ
    ...from a binary archive (wheel) that was built on a system against software libraries that are not compatible with HiPerGator. A typical error message in such ca
    4 KB (579 words) - 20:42, 16 October 2023
  • Conda
    ...tion calls) by individual projects, and obsolescence of system drivers and libraries make it virtually impossible to use an arbitrary set of packages or create ...ackaging abstraction that can combine compiled packages, applications, and libraries as well as </code>pip</code>-installed python packages. They also allow eas
    16 KB (2,392 words) - 20:14, 16 April 2024
  • NLP
    ...have available. If the nlp environments or these environments do not have libraries you require, you made need to create a Conda environment. See [[Conda]] and
    7 KB (989 words) - 19:51, 10 May 2024
  • CUDA Examples
    ...ill, it is a functional example of using one of the available CUDA runtime libraries.
    12 KB (1,540 words) - 17:09, 21 December 2022
  • Multi-Threaded & Message Passing Job Scripts
    When launching applications linked against our OpenMPI libraries via ''srun'', you must specify the correct version of PMIx using the '''"--
    9 KB (1,347 words) - 19:05, 21 July 2023
  • User:Manoj
    Following libraries and flags were used: ...t of its time in the FFT libraries, so the next step was to change the FFT libraries. Following changes were made:
    75 KB (8,369 words) - 08:47, 25 July 2013
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