Scoary
Pan-genome wide association studies (by AdmiralenOla)
| Perfect-bacterial-genome-tutorial | Scoary | |
|---|---|---|
| 2 | 2 | |
| 106 | 137 | |
| - | - | |
| 4.5 | 10.0 | |
| 3 months ago | over 1 year ago | |
| Python | Python | |
| - | 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.
Perfect-bacterial-genome-tutorial
Posts with mentions or reviews of Perfect-bacterial-genome-tutorial.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-01-10.
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Bacterial WGS reads and assembly quality questions
I have ONT and Illumina reads for a bacterial WGS (1.8 Mb) and I'm following Ryan Wick's methods for "perfect bacterial genome assembly" (https://github.com/rrwick/Perfect-bacterial-genome-tutorial). I've ran into a few questions I have not been able to find answers to. I'm a grad student struggling in a mostly clinical lab.
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Is Unicycler the best option for hybrid genome assembly?
You should read this https://github.com/rrwick/Perfect-bacterial-genome-tutorial
Scoary
Posts with mentions or reviews of Scoary.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-11-28.
-
Functional pangenome analysis using Roary strategy?
How about mGWAS, such as Scoary or my about-to-be-published successor Scoary2?
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Is Unicycler the best option for hybrid genome assembly?
BONUS: I was planning on using Scoary (https://github.com/AdmiralenOla/Scoary) together with some Virulence data I have to look for some candidates. Any suggestion of alternative ways to identify virulence factors in these genomes?
What are some alternatives?
When comparing Perfect-bacterial-genome-tutorial and Scoary you can also consider the following projects:
plassembler - Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
ALE - Assembly Likelihood Estimator
scoary-2 - Calculate assocations between genes and traits
merqury - k-mer based assembly evaluation
sgkit - We've moved to https://github.com/sgkit-dev/sgkit