Dependencies

UniAmp is run on Linux and requires basic Linux utilities, python3, and perl.

UniAmp contains wrappers around public bioinformatics software. The following dependencies are included with UniAmp as binaries in the bin folder and do not need to be installed:
- nucmer
- bedtools
- bioawk
- usearch
- blastn
- taxonkit
- datasets
- RNAmmer*
- edirect

* To implement rnammer in UniAmp scripts, the rnammer script included with UniAmp was modified as described here. rnammer also requires the HMMER2 command hmmsearch, so the binary for this command is included in the UniAmp bin folder.

* rnammer requires the perl XML::Simple module. If not already installed, the module can be installed using the command cpan install XML::Simple.