scoary-2
Calculate assocations between genes and traits (by MrTomRod)
Scoary
Pan-genome wide association studies (by AdmiralenOla)
scoary-2 | Scoary | |
---|---|---|
2 | 2 | |
14 | 137 | |
- | - | |
5.5 | 10.0 | |
about 2 months ago | over 1 year ago | |
Python | Python | |
MIT License | 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.
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
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?
What are some alternatives?
When comparing scoary-2 and Scoary you can also consider the following projects:
GToTree - A user-friendly workflow for phylogenomics
plassembler - Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
merqury - k-mer based assembly evaluation
sgkit - We've moved to https://github.com/sgkit-dev/sgkit
Perfect-bacterial-genome-tutorial