NGS Tool Licences

Commercial license required

Bioinformatics Tools that are free for Academic users but require a license for Commercial users.

• GATK
• ABySS
• BLAT, UCSC-Toolkit
• GapFiller, SSPACE-STANDARD, SSPACE-LongRead
• GeneMarkS, GeneMark-ES/ET
• I-TASSER
• MAKER which also incorporates the GeneMarkS, GeneMark-ES/ET tools.
• Stampy
• Phobius
• PEAR
• SHAPEIT
• Phrap
• OligoArrayAux
• REALPHY
• ZDOCK
  • RepeatMasker incorporates the cross_match tool which is part of the phred/phrap package

Free but no re-distribution of the binary permitted

Bioinformatics Tools that are free for all users but do not allow copying of the binary.

• USEARCH The 32-bit version of USEARCH is licensed at no charge for individual use. The license allows commercial use, but does not allow re-distribution of the binary. The 32-bit version is the only version installed on Ada.
  • Qiime: Incorporates the USEARCH tool.

Free alternatives to non-free licensed tools

• VSEARCH is an open source alternative to USEARCH