Augustus
Genome annotation with AUGUSTUS (by Gaius-Augustus)
PGA
Plastid Genome Annotator (by quxiaojian)
| Augustus | PGA | |
|---|---|---|
| 1 | 1 | |
| 264 | 46 | |
| 2.7% | - | |
| 5.0 | 0.0 | |
| 12 days ago | over 3 years ago | |
| C++ | Perl | |
| - | GNU General Public License v3.0 only |
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.
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.
Augustus
Posts with mentions or reviews of Augustus.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-02-15.
-
Cross-species functional annotation?
I use the Augustus tool to annotate a genome. You can give it a species to base the annotation model on. https://github.com/Gaius-Augustus/Augustus
PGA
Posts with mentions or reviews of PGA.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2021-03-04.
-
Extracting CDS from fragmented assemblies
The tool PGA was recommended to me for annotation the assemblies, but it will not accept a multifasta as input. I have to "fuse" the contigs somehow for this tool to work, which I've tried to do a couple different ways described below. Once I have assemblies with just a single sequence, I have no problems annotating them and getting the extracted CDS.
What are some alternatives?
When comparing Augustus and PGA you can also consider the following projects:
Liftoff - An accurate GFF3/GTF lift over pipeline
label-studio - Label Studio is a multi-type data labeling and annotation tool with standardized output format
deeplabel - A cross-platform desktop image annotation tool for machine learning
ksnip - ksnip the cross-platform screenshot and annotation tool
htm.core - Actively developed Hierarchical Temporal Memory (HTM) community fork (continuation) of NuPIC. Implementation for C++ and Python
ksnip - ksnip the cross-platform screenshot and annotation tool [Moved to: https://github.com/ksnip/ksnip]
frugally-deep - A lightweight header-only library for using Keras (TensorFlow) models in C++.