amr
AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence. (by ncbi)
octopus
Bayesian haplotype-based mutation calling (by luntergroup)
amr | octopus | |
---|---|---|
1 | 1 | |
242 | 296 | |
5.0% | 0.3% | |
7.1 | 4.0 | |
9 days ago | 9 months ago | |
C++ | C++ | |
GNU General Public License v3.0 or later | 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.
amr
Posts with mentions or reviews of amr.
We have used some of these posts to build our list of alternatives
and similar projects.
-
No antibiotic resistance genes in plasmidSPAdes assembly
https://github.com/ncbi/amr this tool will report the contig and coordinates for any AMR gene it detects in your assembly. If you want to know which genes are nearby you should also annotate your genome (with prokka for example) as the other response suggested
octopus
Posts with mentions or reviews of octopus.
We have used some of these posts to build our list of alternatives
and similar projects.
-
genotyping tool
Check out octopus https://github.com/luntergroup/octopus
What are some alternatives?
When comparing amr and octopus you can also consider the following projects:
megahit - Ultra-fast and memory-efficient (meta-)genome assembler
TileDB-VCF - Efficient variant-call data storage and retrieval library using the TileDB storage library.
rare-disease-wf - (WIP) best-practices workflow for rare disease