Scoary
Pan-genome wide association studies (by AdmiralenOla)
scoary-2
Calculate assocations between genes and traits (by MrTomRod)
| Scoary | scoary-2 | |
|---|---|---|
| 2 | 2 | |
| 137 | 14 | |
| - | - | |
| 10.0 | 5.5 | |
| over 1 year ago | about 1 month 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.
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?
-
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?
scoary-2
Posts with mentions or reviews of scoary-2.
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?
-
How can i build a phylogenetic tree from bacteria species taxids?
Turning the tree into a newick string can be done using a recursive function. Example: to_newick here: https://github.com/MrTomRod/scoary-2/blob/master/scoary/ScoaryTree.py
What are some alternatives?
When comparing Scoary and scoary-2 you can also consider the following projects:
plassembler - Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
GToTree - A user-friendly workflow for phylogenomics
merqury - k-mer based assembly evaluation
sgkit - We've moved to https://github.com/sgkit-dev/sgkit
Perfect-bacterial-genome-tutorial