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• Uproc
  ...ge-scale sequence analysis and is now available in terms of an open source C library. UProC is up to three orders of magnitude faster than profile-based
  3 KB (418 words) - 20:53, 12 August 2022
• Gem5
  gem5 is written primarily in C++ and python and most components are provided under a BSD style license. It
  3 KB (434 words) - 19:23, 10 June 2022
• SAMStat
  SAMStat is an efficient C program to quickly display statistics of large sequence files from next gen
  3 KB (429 words) - 20:34, 12 August 2022
• Chewiesnake
  Deneke C, Uelze L, Brendebach H, Tausch SH and Malorny B (2021)
  4 KB (457 words) - 15:02, 23 October 2023
• ART
  ...r the simulation study of the 1000 Genomes Project . ART is implemented in C++ with optimized algorithms and is highly efficient in read simulation. ART
  3 KB (440 words) - 21:10, 6 December 2019
• FAQ
  ...cProfile for python code, [[Nsight]] Compute for CUDA apps, or VTune for C/C++ + MPI code.
  7 KB (1,199 words) - 02:11, 17 April 2024
• MP-EST
  ...rees by maximizing a pseudo-likelihood function. The program is written in C. The parallel version of the program can run independent searches (chains)
  4 KB (489 words) - 12:01, 19 August 2022
• Reptile
  Reptile is a software developed in C++ for correcting sequencing errors in short reads from next-gen sequencing
  3 KB (458 words) - 21:46, 21 August 2022
• Ea-utils
  :: Similar to audy's stitch program, but in C, more efficient and supports some automatic benchmarking and tuning. It use
  4 KB (438 words) - 14:54, 15 August 2022
• Lazypipe
  ...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
• PennCNV
  Diskin SJ, Li M, Hou C, Yang S, Glessner J, Hakonarson H, Bucan M, Maris JM, Wang K. Adjustment of
  4 KB (474 words) - 21:23, 6 December 2019
• Fast-Plast
  Marçais, G. and C. Kingsford. 2011. A fast, lock-free approach for efficient parallel countin
  4 KB (487 words) - 21:20, 6 December 2019
• Matlab
  ...mputing problems faster than traditional programming languages, such as C, C++, and Fortran. -rw-r--r-- 1 root root 2900 Apr 3 10:08 houdini_main.c
  9 KB (1,361 words) - 16:06, 28 November 2023
• SLURM Commands
  sinfo -o %P,%D,%c,%X,%m,%f
  4 KB (574 words) - 15:30, 25 April 2024
• GROMACS
  Hess, B., Kutzner, C., van der Spoel, D. and Lindahl, E.
  4 KB (556 words) - 19:16, 5 January 2023
• SnpEff
  *<pre>java -Xmx2g -jar $HPC_SNPEFF_DIR/jar/snpEff.jar download -c $HPC_SNPEFF_CONF/snpEff.config -v athalianaTair10</pre>
  4 KB (562 words) - 15:19, 5 January 2023
• Python
  ...load the environment module and run <code>pip list</code> or <code>python -c "help('modules')"</code> command before submitting a request for a new modu
  5 KB (670 words) - 19:42, 3 February 2023
• MetaBCC-LR
  -c 25000 \
  6 KB (774 words) - 14:28, 15 December 2022
• How To ResVault
  #* You can save data in the default C:\ drive, but it will be wiped out at the end of every session. Therefore, c
  6 KB (953 words) - 20:01, 18 July 2023
• Sate
  * Liu, K., S. Raghavan, S. Nelesen, C. R. Linder, T. Warnow, 2009. "Rapid and accurate large scale coestimation o * Liu, K., T.J. Warnow, M.T. Holder, S. Nelesen, J. Yu, A. Stamatakis, and C.R. Linder. "SATé-II: Very Fast and Accurate Simultaneous Estimation of Mul
  7 KB (910 words) - 20:43, 21 December 2022
• Multi-Threaded & Message Passing Job Scripts
  *<code>-c, --cpus-per-task=<ncpus></code>
  9 KB (1,347 words) - 19:05, 21 July 2023
• Conda
  mamba install cudatoolkit=11.3 pytorch=1.12.1=gpu_cuda* -c pytorch
  16 KB (2,392 words) - 20:14, 16 April 2024
• User:Manoj
  FC="mpif90 -c" \ FC="mpif90 -c" \
  75 KB (8,369 words) - 08:47, 25 July 2013

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