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Dear, I have metagenome assembly of two samples that I am trying to bin. Although I have a high abundance of Proteobacterial reads, after binning I don't get any Proteobacterial bin. What could be the…
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It would be valuable to update the Unipept workbench and the Unipept API with some tools for aggregating biodiversity identifications (may be extended later on with tools to aggregate functional ident…
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Dear, after install it with `conda`, I prepared my data with example cmds listed as in github README using executable `cut_up_fasta.py` and `concoct_coverage_table.py`. I'm using HPC and I submit a mi…
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Hi,
Using version 5.1 and the metagenomics workflow:
It's my first time to use anvio. I get the following messages when I am running anvi-merge step
`[21 Sep 18 09:08:54]
* Anvi'o hierarchi…
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Issue as posted on stackoverflow:
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I have a snakemake workflow for a metagenomics project. At a point in the workflow, I map DNA sequencing reads (eithe…
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fasta: http://gannet.fish.washington.edu/Atumefaciens/20190102_metagenomics_geo_megahit/megahit_out/final.contigs.fa
then use coverage file
http://gannet.fish.washington.edu/Atumefaciens/20190102…
sr320 updated
5 years ago
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Hi!, I am using Canu 1.8 in a Linux RedHat system with the following command:
```
canu -p ONTassembly -d $WDR -fast -minReadLength=1500 -stopOnLowCoverage=0.010 -batMemory=80 -merylMemory=80 -maxMem…
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Hi there,
my canu process is stopping after cormhap. I restart the job, but the same error appeared.
Can't figure out what the problem is. Any help, please?
canu -p ONTassembly -d $WDR -fast -…
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Dear Silas,
Last time, I consulted you about the taxonomic and functional profiling for metagenomic data. After check the several papers and blocks, I want to try metaphlan2 and humann2 to get taxo…
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Spinning out a distinct ticket for @dosumis' idea in #13615
For background see slides:
https://docs.google.com/presentation/d/1NdOSZa3Y1h229dvX20pkGlbEnjAeVPmeo5NVZcyd10s/edit?usp=sharing