Applications by license
Select a license category for a brief description and a list of applications with corresponding licensing.
Applications with 'Academic' licensing
These software can be used by any researcher or student affiliated with an academic, i.e. degree-granting, institute for non-profit non-commercial purposes. Employees of governmental research institutes or non-academic non-profit institutes might not be permitted to use the software. Please always see the specific licensing details under the respective application pages.
Applications with 'Free' licensing
These software are freely available for anyone to use for most purposes. Please always see the specific licensing details under the respective application pages.
- ABySS
- ADMIXTURE
- ANGSD
- ASTRAL
- AUGUSTUS
- Accelerated visualization
- AdmixTools
- Alphafold
- BBMap
- BCFtools
- BEDOPS
- BEDTools
- BLAST
- BRAKER
- BUSCO
- BWA
- Bakta
- BamTools
- Barrnap
- BayeScan
- Bio-apps
- BioPerl
- Biopython
- Blender
- Bowtie
- Bowtie2
- Bracken
- CD-HIT
- CDO
- CLUMPP
- CP2K
- Canu
- CheckM2
- Chipster_genomes
- Cirq-on-iqm
- CloudCompare
- Clustal Omega
- ClustalW
- Cufflinks
- Cutadapt
- Desktop
- Diamond
- Dorado
- EMBOSS
- Elmer
- Entrez Direct
- Exonerate
- FASTX-Toolkit
- FDSTools
- FFmpeg
- FastQC
- FireWorks
- Foldseek
- Freebayes
- GATK
- GDAL
- GPAW
- GRASS GIS
- GROMACS
- GTDB-Tk
- Geoconda
- GetOrganelle
- Grace
- HISAT2
- HMMER
- HUMAnN
- HeLI-OTS
- HyPhy
- HybPiper
- HyperQueue
- IGV
- IQ-TREE
- Illumina BaseSpace
- InterProScan
- JAX
- Jellyfish
- Julia Language
- Julia-Jupyter
- Jupyter
- Jupyter for courses
- Kraken
- LAMMPS
- Lazypipe
- MACS2/3
- MAFFT
- MEME Suite
- MICOM
- MMseqs2
- MUMmer
- MUSCLE
- MUSCLE5
- Mash
- Megahit
- MetaBAT
- MetaHipMer2 (MHM2)
- MetaPhlAn
- Minimap2
- Mothur
- MrBayes
- NCBI C++ Toolkit
- NWChem
- Nextflow
- ORCA
- Octave
- Open Babel
- OpenDroneMap (ODM)
- OpenFOAM
- Orfeo ToolBox
- PALM
- PANNZER2/SANSPANZ
- PDAL
- PHYLIP
- PLUMED
- ParaView
- Pennylane
- Picard Tools
- Praat
- Prodigal
- Prokka
- PyTorch
- Python
- Python Data
- Python-geo
- QGIS
- QIIME
- Qiskit
- Qiskit-on-iqm
- Quantum ESPRESSO
- R for GIS
- RAxML
- RAxML-NG
- RevBayes
- Roary
- SAGA GIS
- SALMON
- SAMtools
- SNAP
- SPAdes
- SRA Toolkit (sra-tools)
- STAR
- SageMath
- SameStr
- Scalasca
- SeqKit
- Seqtk
- Snakemake
- SortMeRNA
- SteadierCom
- StrAuto
- StringTie
- Structure
- Structure Harvester
- TensorBoard
- TensorFlow
- TopHat
- Trimmomatic
- Trinity
- VCFtools
- VSEARCH
- VisIt
- Visual Studio Code
- Whisper
- WhiteboxTools
- XHMM (eXome-Hidden Markov Model)
- Zonation
- antiSMASH
- bwa-mem2
- cProfile: Python profiler
- compute-sanitizer: functional correctness checking suite for CUDA programs
- cuda-gdb: CUDA debugger
- deepTools
- demix_check
- eBay's tsv-utils
- eggNOG-mapper
- fastp
- gapseq
- gdb: GNU Debugger
- hifiasm
- iPyrad
- inStrain
- kp-spell
- medaka
- minibwa
- ncu: GPU CUDA Kernel Profiler
- nsys: Nvidia GPU and CPU profiler
- pdb: Python debugger
- perf
- run_dbcan (dbCAN)
- trankit
- vLLM
- vrt-tools
- wtdbg2
- yak
Applications with 'Non-commercial' licensing
The use of these software is restricted to non-commercial purposes irrespective of affiliation. Please always see the specific licensing details under the respective application pages.
Applications with 'Other' licensing
Please see further instructions and licensing details under the specific application pages. For example, these software may require the user to acquire their own license directly from the developers, or there could be additional steps needed to get usage permission (e.g. addition to Unix group).