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Hello, I have an error, and not sure how to prevent it, or if this is an issue with the software itself.
Using canu version 1.8 on Ubuntu 16.04.6 LTS (no virtual machine).
```
$ canu --version
…
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I put the files on eagle under the emma folder. Here is what you have:
orf.fna - entire metagnome assembly
proteins.prodigal.faa - translation of metagenome assembly
orfMG...fna - assemblies of ind…
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Hi Mikhail!
I have some doubts regarding metagenome assemblies using PacBio/ONT read datasets.
Since Flye also needs a genome size parameter for the assemblies, I was wondering how to decide on …
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Hi, thanks for this tool! Very easy to use and great documentation. Still, I'm struggeling with the output of my run. I'm working on a set of environmental samples that I would like to use for compara…
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I noticed that if you use a reference genome for annotation with option '--proteins', lots of false paralogs will be annotated (gene names which are numerated with an underscore '_'; see hash %collide…
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Hi Anvi'o team, I am running anvi-run-hmm on a custom set of hmms from the FOAM database (https://academic.oup.com/nar/article/42/19/e145/2902479). Currently, anvio (v5.5, installed via conda in its o…
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Hi Mikhail,
I have two questions:
1. I noticed that Flye produces a polished assembly. Do we need to polish it with an external programs like nanopolish, CONSENT, etc ?
2. I am trying to ass…
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Hello, When I used canu to assemble my Acinetobacter baumannii genome, I encountered an error, which said "the read coverage(6.18) is too low to be useful". I tried again with the same error output, a…
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I am running CONCOCT with some assembled metagenomes from soil samples. I used MegaHit for the assembly and everything looked pretty good. Once I tried the binning, however, I get the following error.…
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Hello, I attempted to run canu with a metagenome. I used the following command : `canu -p metagenomeAssembly -d assembly genomeSize=5m corOutCoverage=10000 corMhapSensitivity=high corMinCoverage=0 red…