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• TAU
  ...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 A
  4 KB (581 words) - 22:37, 24 October 2022
• Segemehl
  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, H
  3 KB (406 words) - 22:30, 21 August 2022
• GDSL
  ...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 imp
  3 KB (305 words) - 15:37, 6 June 2022
• Imagej2
  Rueden, C. T., Schindelin, J., Hiner, M. C., DeZonia, B. E., Walter, A. E., Arena, E. T., & Eliceiri, K. W. (2017). Im
  3 KB (308 words) - 16:31, 20 October 2022
• Allhic
  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
• KIM
  * C * C++
  3 KB (322 words) - 19:19, 15 August 2022
• Intel Compilers and Libraries
  | 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
• 3d-dna
  ...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 ahea
  3 KB (328 words) - 17:51, 10 June 2022
• Minimac
  ...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 imputa
  3 KB (332 words) - 20:11, 18 August 2022
• OpenCL
  ...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.c
  3 KB (365 words) - 17:52, 19 August 2022
• SHARCGS
  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 sets
  3 KB (313 words) - 22:42, 21 August 2022
• PICRUSt
  ...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
• HOMER
  ...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
• Maq
  maqindex -i -c consensus.cns all.map; maqview -c consensus.cns all.map
  3 KB (377 words) - 19:47, 12 August 2022
• Phenix
  .... 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
  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 files
  3 KB (362 words) - 12:54, 15 August 2022
• BUCKy
  [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 Bayes
  3 KB (386 words) - 13:15, 15 August 2022
• Elastix
  ...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
  Mamba is a reimplementation of the conda package manager in C++. core parts of mamba are implemented in C++ for maximum efficiency
  3 KB (429 words) - 20:16, 3 June 2022
• Genesis
  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. Mo
  3 KB (368 words) - 17:51, 3 April 2024

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