virMine
VirusSeeker-Virome
virMine | VirusSeeker-Virome | |
---|---|---|
1 | 1 | |
18 | 16 | |
- | - | |
0.0 | 10.0 | |
about 2 years ago | over 6 years ago | |
Python | Perl | |
MIT License | GNU General Public License v3.0 only |
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
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For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
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VirMine: docker container can't be built due to outdated and unavailable dependencies.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.
VirusSeeker-Virome
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Bad tools that NEED improvement
VirusSeeker: no installation or running instructions on GitHub. They do have it on their lab website, but you have to edit source files to point to databases. Too much of a pain. So not sure how it works once that is done.
What are some alternatives?
RNN-VirSeeker - This is a deep learning method for identification of viral contigs with short length from metagenomic data.
DeePhage - A tool for distinguish temperate phage-derived and virulent phage-derived sequence in metavirome data using deep learning
PhaMers - A bioinformatic tool for identifying bacteriophages using machine learning and k-mers
virnet - VirNet: A deep attention model for viral reads identification
PPR-Meta - A tool for identifying phages and plasmids from metagenomic fragments using deep learning
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
MetaRon - Metagenomic opeRon Prediction pipeline. MetaRon presents the first pipeline for the prediction of metagenomic operons without any functional or experimental data.