abricate
:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes (by tseemann)
GraphBin2
☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs (by metagentools)
| abricate | GraphBin2 | |
|---|---|---|
| 3 | 1 | |
| 342 | 27 | |
| - | - | |
| 0.0 | 7.8 | |
| 5 months ago | 25 days ago | |
| Perl | Python | |
| GNU General Public License v3.0 only | BSD 3-clause "New" or "Revised" 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.
abricate
Posts with mentions or reviews of abricate.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-03-25.
- Predicting Antimicrobial Resistance in a Sequence
-
best way to identify AMR genes from a whole genome
I personally use ABRicate because it's simple https://github.com/tseemann/abricate. But there's a whole heap of other tools and papers like this commenting on those https://www.frontiersin.org/articles/10.3389/fpubh.2019.00242/full
-
best way to search whole genomes for known antibiotics resistance genes
Try abricate https://github.com/tseemann/abricate
GraphBin2
Posts with mentions or reviews of GraphBin2.
We have used some of these posts to build our list of alternatives
and similar projects.
What are some alternatives?
When comparing abricate and GraphBin2 you can also consider the following projects:
ariba - Antimicrobial Resistance Identification By Assembly
atlas - ATLAS - Three commands to start analyzing your metagenome data
abritamr - A pipeline for running AMRfinderPlus and collating results into functional classes
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
MGEfinder - A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
kraken-biom - Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).