Overview

Herein, find summaries of each package with links to a more detailed page for each package.
Below is a list of software / applications that are available on Beartooth. Click the software title to learn more about a particular software package, including its associated module name that can be used to find available versions and to load.
Please refer to our LMOD page for information about and how to use the module system:

Last Updated: 4/02/24

application

Alphafold

ANGSD

ATAT

Augustus

BamTools

Bayescan

BCFtools

Beast2

Bedtools2

Blast+

Blender

Brains

Busco

BWA

Canu

CDNest

Cell Ranger ATAC

Circlator

Clustal Omega

Cmdstan

Cutadapt

DFTB

EddyProEngine

EnergyPlus

Ensembl VEP

Exonerate

FastQC

Freebayes

FunGAP

GATK

Gaussian & GaussView

GeneMark-ES Suite

Gromacs

Hifiasm

HISAT2

HTSeq

HTSlib

HyDe

IGV

ImageJ

ImageMagick

Interproscan

IPA

IQ-Tree

Jags

Kallisto

Kraken

LAMMPS

LDhelmet

LocalColabFold

Localizer

Maestro

MAFFT

Maker

MATLAB

Metaxa2

MFiX

MOOSE

MSMC2

MultiQC

MUMmer4

NCBI-RMBlast

Nextflow

OpenFOAM.org

Orca

Packmol

ParaView

ParFlow

PathoFact

Paup

PGDSpider

Picard

Prodigal

Proovread

Qiime2

Quantum Espresso

RAxML

Ray

RepeatMasker

RoseTTAFold

Salmon

Samtools

SeqKit

SignalP

SLiM

Snap-korf

SourceTracker2

SPades

Star

StringTie

Structure

Trimmomatic

Trinity

USearch

VASP

VASPKIT

VCF2GWAS

VCFtools

VSEARCH

compiler

GNU

Intel oneAPI

NVidia HPC SDK

containers and virtual envs

Micromamba

Miniconda

Miniforge

Singularity

ide

PyCharm

RStudio

language

C/C++

Fortran

Go

Java

Julia

Perl

Python

R

Ruby

Rust

libraries and toolkits

Adios2

Bedops

BioPerl

BioPython

CGAL

Cuda

cuDNN

ELPA

FASTX-Toolkit

GDAL

GEOS

GSL

NCO

NetCDF

OpenBLAS

OpenMPI

PETSc

Rmpi

SRA-Toolkit

utility

Ant

Aspera-Connect

CMake

FileZilla

Gffcompare

Git

GNUPlot

GSUtil

IOR

KentUtils

NCBI-Datasets-CLI

newick_util

PAPI

Parallel (gnu)

Ranger

RClone

Sequence Hub CLI

Snakemake

Subversion