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SRM Supercomputer Center

Computational Science and Engineering

Applications and Compilers

Applications:

  • Vasp
  • Quantum espresso
  • CP2K
  • Matlab
  • Wien2k
  • SILVACO
  • Miniconda 2 and 3
  • CNVnator
  • ROOT
  • WRF
  • SBDART Model
  • ROMSAF
  • WACCM
  • NCL
  • RT Model

Tools:

  • Sam tools
  • Bam tools
  • bcf tools
  • FastQC
  • Graphviz
  • Picard
  • Sickle
  • Cutadapt
  • FASTX

Assemblers:

  • All Paths
  • Celera
  • Ray
  • SSPACE
  • Velvet
  • Velvet Optimiser
  • Trinity
  • SGA
  • SOAP denovo
  • SOAP denovo-Trans
  • Edena
  • Trans-Abyss
  • Oases
  • Cap3
  • CNVnator
  • Annovar
  • Annocript
  • SPADES

Interpreters and Runtime Environments:

  • R
  • Python
  • Bio Python
  • Bio conductor
  • Perl
  • Bio Perl
  • Java
  • Numpy

Scientific Libraries:

  • LAPACK
  • BLAS
  • FFTW
  • SCALAPACK
  • HDF5

Compilers:

  • OpenMPI
  • MPICH
  • Javac
  • Cmake