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issue-162 added transrate citation
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tfalkarkea committed Aug 24, 2023
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- [Prodigal](https://github.com/hyattpd/Prodigal)

- [BBmap] (https://sourceforge.net/projects/bbmap/)
- [BBmap](https://sourceforge.net/projects/bbmap/)

- [FeatureCounts](https://subread.sourceforge.net)

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- [EUKulele](https://github.com/AlexanderLabWHOI/EUKulele)

- [CAT](https://github.com/dutilh/CAT)

> von Meijenfeldt FAB, Arkhipova K, Cambuy DD, Coutinho FH, Dutilh BE. Robust taxonomic classification of uncharted microbial sequences and bins with CAT and BAT. Genome Biology. 2019;20:217.
- [transrate](https://hibberdlab.com/transrate/)
> TransRate: reference free quality assessment of de-novo transcriptome assemblies (2016). Richard D Smith-Unna, Chris Boursnell, Rob Patro, Julian M Hibberd, Steven Kelly. Genome Research doi: [http://dx.doi.org/10.1101/gr.196469.115](http://dx.doi.org/10.1101/gr.196469.115)
## Software packaging/containerisation tools

- [Anaconda](https://anaconda.com)
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