virnet VS RNN-VirSeeker

Compare virnet vs RNN-VirSeeker and see what are their differences.

virnet

VirNet: A deep attention model for viral reads identification (by alyosama)
Bioinformatics metagenomics Deep Learning Lstm Python Keras
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RNN-VirSeeker

This is a deep learning method for identification of viral contigs with short length from metagenomic data. (by crazyinter)
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virnet RNN-VirSeeker
1 1
29 8
- -
0.0 0.0
over 2 years ago over 2 years ago
Jupyter Notebook Python
Apache License 2.0 -
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
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.

virnet

Posts with mentions or reviews of virnet. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2021-12-18.
  • Bad tools that NEED improvement
    11 projects | /r/bioinformatics | 18 Dec 2021
    VirNet: several issues with their dependencies not being available. For fun, you have to read the issue opened on their "requirments.txt". Pointed out bad dependencies, and mentioned that the file "requirments.txt" was mispelled and so didn't match the README. They updated the README to reflect the mispelling, left the bad file name and bad dependencies, and closed the issue.

RNN-VirSeeker

Posts with mentions or reviews of RNN-VirSeeker. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2021-12-18.
  • Bad tools that NEED improvement
    11 projects | /r/bioinformatics | 18 Dec 2021
    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?

When comparing virnet and RNN-VirSeeker you can also consider the following projects:

PhaMers - A bioinformatic tool for identifying bacteriophages using machine learning and k-mers

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

virMine

MetaRon - Metagenomic opeRon Prediction pipeline. MetaRon presents the first pipeline for the prediction of metagenomic operons without any functional or experimental data.

DeePhage - A tool for distinguish temperate phage-derived and virulent phage-derived sequence in metavirome data using deep learning

Cenote_Unlimited_Breadsticks - DEPRECATED: Discover divergent virus sequences, prune flanking cellular sequences, make basic report

virnet vs PhaMers RNN-VirSeeker vs PPR-Meta virnet vs metaGEM RNN-VirSeeker vs virMine virnet vs PPR-Meta RNN-VirSeeker vs MetaRon virnet vs MetaRon RNN-VirSeeker vs DeePhage virnet vs Cenote_Unlimited_Breadsticks RNN-VirSeeker vs PhaMers virnet vs DeePhage RNN-VirSeeker vs metaGEM