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The manual says:
```
First of all we construct a FASTA file with the binary presence and absence of genes, where 'A' means a gene is present and 'C' means it is absent. Only the first 4000 genes in t…
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The SWG today (2020-05-27) discussed whether the development of **OGC API - Common - Part 2: Collections** might have implications for **OGC API - Coverages**. The SWG agreed to revise the document, i…
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Hi!
I get this recurring error message, also in the newest version.
I ran with -v option to get a bit more info on when it is happening and it seems to be in the end of the FastTree part.
2015/11/…
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hi,
Can you help me resolve this error. i am testing poppunk on 33 S. pyogenes genomes.
I ran the following command:
````
poppunk --easy-run --r-files reference_list.txt --output gas_db --th…
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Hi Torsten,
I ran nullarbor2 (conda install) on 165 isolates, it seemingly runs fine, but doesn't create that final report (which is so handy).
I had a look at the log, but I can't find a very obv…
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In the QIIME workflow, I am trying to replace the very slow and not appropriate vsearch classification of long-read metagenomics sequencing (ONT) by minimap2 which is very fast for this kind of reads.…
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Hi Zhiqun,
Thanks for developing such useful software.
It seems that genomic sequences are required by ISEscan. But the some predicted IS regions cover partial a gene that I predicted with porkka…
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Hi,
I am running a functional enrichment analysis with anvi-get-enriched-functions-per-pan-group. I get the output without any errors. From the output i select a gene cluster that in the "core" colum…
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Hello,
I'm trying to assign some queries to a reference database which I downloaded from poppunk.net, but I am getting multiple errors:
```
poppunk --assign-query --ref-db listeria_references --d…
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I recently ran Canu on a algae genome sample sequenced with nanopore technology.
After removing reads less than 1000 bp with canu I still had roughly 50X coverage of my genome. However these reads we…