ALE
Assembly Likelihood Estimator (by sc932)
| Perfect-bacterial-genome-tutorial | ALE | |
|---|---|---|
| 2 | 1 | |
| 106 | 32 | |
| - | - | |
| 4.5 | 2.2 | |
| 3 months ago | about 1 year ago | |
| Python | C | |
| - | GNU General Public License v3.0 or later |
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.
-
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
ALE
Posts with mentions or reviews of ALE.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-01-10.
-
Bacterial WGS reads and assembly quality questions
I used ALE (https://github.com/sc932/ALE) and Prodigal to evaluate assembly quality. The ALE score was what I think is a terrible -15000000 and a 300 mean prodigal length (I think this is good?). Does anyone know of a guide to interpretation of ALE scores besides the original publication? Any recommendations on other ways to evaluate de-novo assemblies without existing reference genomes?
What are some alternatives?
When comparing Perfect-bacterial-genome-tutorial and ALE you can also consider the following projects:
plassembler - Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
Scoary - Pan-genome wide association studies