MetaRon
virMine
MetaRon | virMine | |
---|---|---|
1 | 1 | |
6 | 18 | |
- | - | |
1.8 | 0.0 | |
about 2 years ago | about 2 years ago | |
Python | Python | |
GNU General Public License v3.0 or later | MIT License |
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MetaRon
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Bad tools that NEED improvement
MetaRon is a tool for metagenomic operon prediction that was published in BMC Genomics in 2020. As far as I can tell, no one has been able to get it to work, and the authors are unresponsive on GitHub. If I knew any python, I would take a crack at fixing it.
virMine
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Bad tools that NEED improvement
VirMine: docker container can't be built due to outdated and unavailable dependencies. Even with that resolved myself, they install a package that needs CLI input during container building which cannot be supplied so it gets stuck in a loop. Cannot be installed.
What are some alternatives?
RNN-VirSeeker - This is a deep learning method for identification of viral contigs with short length from metagenomic data.
VirusSeeker-Virome - VirusSeeker is a set of fully automated and modular software package designed for mining sequence data to identify sequences of microbial origin.
metaGEM - :gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
virnet - VirNet: A deep attention model for viral reads identification
PhaMers - A bioinformatic tool for identifying bacteriophages using machine learning and k-mers
ViraMiner - CNN based classifier for detecting viral sequences among metagenomic contigs
DeePhage - A tool for distinguish temperate phage-derived and virulent phage-derived sequence in metavirome data using deep learning