Applications.rst

Applications

AMD

.. toctree::
   :titlesonly:

   Applications/amdblis
   Applications/amdfftw
   Applications/amdlibflame
   Applications/amdlibm
   Applications/amdscalapack

Audio/Visualization

.. toctree::
   :titlesonly:

   Applications/ffmpeg
   Applications/gmt
   Applications/gnuplot
   Applications/paraview
   Applications/visit
   Applications/vlc
   Applications/vtk

Bioinformatics

.. toctree::
   :titlesonly:

   Applications/bamtools
   Applications/beagle
   Applications/beast2
   Applications/bismark
   Applications/blast-plus
   Applications/bowtie2
   Applications/bwa
   Applications/cufflinks
   Applications/cutadapt
   Applications/fastqc
   Applications/fasttree
   Applications/fastx-toolkit
   Applications/gatk
   Applications/htseq
   Applications/mrbayes
   Applications/nf-core
   Applications/perl-bioperl
   Applications/picard
   Applications/samtools
   Applications/sratoolkit
   Applications/tophat
   Applications/trimmomatic
   Applications/vcftools

Climate

.. toctree::
   :titlesonly:

   Applications/cdo
   Applications/ncl

Computational chemistry

.. toctree::
   :titlesonly:

   Applications/amber
   Applications/cp2k
   Applications/gromacs
   Applications/lammps
   Applications/namd
   Applications/nwchem
   Applications/quantum-espresso
   Applications/vasp
   Applications/vmd
   Applications/wannier90

Fluid dynamics

.. toctree::
   :titlesonly:

   Applications/openfoam

Geospatial tools

.. toctree::
   :titlesonly:

   Applications/gdal
   Applications/geos
   Applications/grads
   Applications/proj

Libraries

.. toctree::
   :titlesonly:

   Applications/arpack-ng
   Applications/blis
   Applications/boost
   Applications/eigen
   Applications/fftw
   Applications/gmp
   Applications/gsl
   Applications/hdf5
   Applications/hdf
   Applications/intel-mkl
   Applications/libfabric
   Applications/libflame
   Applications/libiconv
   Applications/libmesh
   Applications/libszip
   Applications/libtiff
   Applications/libv8
   Applications/libx11
   Applications/libxml2
   Applications/mpfr
   Applications/netcdf-c
   Applications/netcdf-cxx4
   Applications/netcdf-fortran
   Applications/netlib-lapack
   Applications/openblas
   Applications/parallel-netcdf
   Applications/petsc
   Applications/swig
   Applications/ucx
   Applications/zlib

Mathematical/Statistics

.. toctree::
   :titlesonly:

   Applications/gurobi
   Applications/jupyter
   Applications/matlab
   Applications/meep
   Applications/octave
   Applications/r
   Applications/rstudio

ML toolkit

.. toctree::
   :titlesonly:

   Applications/learning
   Applications/nco
   Applications/py-mpi4py
   Applications/python
   Applications/spark

NVIDIA

.. toctree::
   :titlesonly:

   Applications/cuda
   Applications/cudnn
   Applications/nccl
   Applications/nvhpc

Programming languages

.. toctree::
   :titlesonly:

   Applications/julia
   Applications/tcl

System

.. toctree::
   :titlesonly:

   Applications/cue-login-env
   Applications/modtree
   Applications/xalt

Text Editors

.. toctree::
   :titlesonly:

   Applications/vscode

Tools/Utilities

.. toctree::
   :titlesonly:

   Applications/anaconda
   Applications/aws-cli
   Applications/cmake
   Applications/curl
   Applications/emacs
   Applications/gdb
   Applications/gpaw
   Applications/hadoop
   Applications/hpctoolkit
   Applications/hwloc
   Applications/launcher
   Applications/monitor
   Applications/mpc
   Applications/ncview
   Applications/numactl
   Applications/openjdk
   Applications/papi
   Applications/parafly
   Applications/protobuf
   Applications/qemu
   Applications/qt
   Applications/texlive
   Applications/tk
   Applications/totalview
   Applications/valgrind

Workflow automation

.. toctree::
   :titlesonly:

   Applications/hyper-shell
   Applications/nextflow
   Applications/parallel