MedicineBow Software List
The following list of software is available on Medicinebow through preinstalled modules. These modules are accessible using the LMOD system. Please review Using The Module System on HPC for directions on utilizing the LMOD system on ARCC HPC Clusters.
Applications
| Module Names |
|
|
|
|
| Astral |
BWA |
Bam-countread |
Bcftools |
Beast1 |
| Beast2 |
Blast |
Bowtie2 |
Dorado |
FastQC |
| Fastp |
Gaussian & GaussView |
Guppy (CPU) |
Guppy (GPU) |
Hisat2 |
| IDL |
IQ-Tree |
MAFFT |
MATLAB |
MultiQC |
| Muscle |
Nextflow |
ParaView |
Picard |
Qiime2 |
| RSeQC |
RegTools |
SPAdes |
Samtools |
Subread |
| TopHat |
Trimmomatic |
vcftools |
|
|
Compilers
| Module Names |
|
|
| GNU |
Intel oneAPI |
NVidia HPC SDK |
Containers and virtual envs
| Module Names |
|
| Apptainer |
Miniconda |
IDE
| Module Names |
|
|
| PyCharm |
RStudio |
Visual Studio Code |
Languages
| Module Names |
|
|
|
|
| C/C++ |
Fortran |
Go |
Java |
Julia |
| Perl |
Python2 |
Python3 |
R |
Ruby |
| Rust |
|
|
|
|
Libraries
| Module Names |
|
|
|
|
| Adios2 |
Bison |
Boost |
CGAL |
CGNS |
| Cairo |
ELPA |
Eigen |
FFTW |
GDAL |
| GEOS |
GSL |
HDF5 |
HYPRE |
ICU4C |
| LAPACK |
METIS |
MPFR |
NCURSES |
NetCDF-C |
| NetCDF-CXX |
Nettle |
OpenBLAS |
OpenMPI |
PARMETIS |
| PCRE2 |
PETSc |
Pigz |
Pixman |
ScaLAPACK |
| Scotch |
Voropp |
Wannier90 |
Zlib |
Zolton |
| Module Names |
|
|
| Bedops |
Cuda |
SRA-Toolkit |
Utilities
| Module Names |
|
|
|
|
| GSUtil |
IOR |
KentUtils |
OSU Micro Benchmarks |
Parallel (gnu) |
| RClone |
qperf |
stress-ng |
silver-searcher |
Sublime-text |
| gcloud |
|
|
|
|
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There are 10s of utilities that will be automatically available on the System as part of the OS without needing to load a module.
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Some utilities will come as part of the system but might have a module with a newer version