bakta
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids (by oschwengers)
QUEEN
QUEEN: a framework to generate quinable and efficiently editable nucleotide sequence resources (by yachielab)
Our great sponsors
| bakta | QUEEN | |
|---|---|---|
| 1 | 5 | |
| 389 | 34 | |
| - | - | |
| 8.5 | 2.9 | |
| about 2 months ago | 6 months ago | |
| Python | Python | |
| GNU General Public License v3.0 only | MIT License |
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.
bakta
Posts with mentions or reviews of bakta.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-10-11.
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orfs in DNA
If you need more accurate ORF(CDS) prediction including functional annotation, I recommend using CLI tools such as prokka, bakta, or DFAST (DFAST is also available in a web version).
QUEEN
Posts with mentions or reviews of QUEEN.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-07-21.
-
A simulator for restriction enzyme digestion and ligation-based cloning on Google colab
Theoretically yes. The GenBank output generated using QUEEN records the operational history of how the construct is generated. However, such visualization function you mentioned is still developing. The example plasmid map and simple flow map are the limits of the current visualization function.
- Show HN: A framework to describe and share DNA construction protocols
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A framework to efficiently describe and share reproducible DNA materials and construction protocols
GitHub: https://github.com/yachielab/QUEEN
- QUEEN: A domain-specific language to describe DNA construction processes.
What are some alternatives?
When comparing bakta and QUEEN you can also consider the following projects:
prokka - :zap: :aquarius: Rapid prokaryotic genome annotation
pydna - Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
FastANI - Fast Whole-Genome Similarity (ANI) Estimation
GTDBTk - GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
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
dfast_core - DDBJ Fast Annotation and Submission Tool