ViraMiner
RNN-VirSeeker
| ViraMiner | RNN-VirSeeker | |
|---|---|---|
| 1 | 1 | |
| 28 | 8 | |
| - | - | |
| 10.0 | 0.0 | |
| over 3 years ago | over 2 years ago | |
| Python | Python | |
| - | - |
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
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.
ViraMiner
-
Bad tools that NEED improvement
ViraMiner: bad documentation. Wasnt sure how to install or run it. Maybe it works? Never got that far.
RNN-VirSeeker
-
Bad tools that NEED improvement
RNN-Virseeker: hard coded paths to training and actual data, so source code must be edited for it to be used. Bad practice and unscalable. Also, they don't follow Python conventions. test.py is generally meant to indicate a unit/integration test file for something like pytest, but in their "tool" that is the actual tool's file name.
What are some alternatives?
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
PPR-Meta - A tool for identifying phages and plasmids from metagenomic fragments using deep learning
DeePhage - A tool for distinguish temperate phage-derived and virulent phage-derived sequence in metavirome data using deep learning
virMine
PhaMers - A bioinformatic tool for identifying bacteriophages using machine learning and k-mers
MetaRon - Metagenomic opeRon Prediction pipeline. MetaRon presents the first pipeline for the prediction of metagenomic operons without any functional or experimental data.
virnet - VirNet: A deep attention model for viral reads identification