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Greetings,
I'm trying to develop a script to extract host metadata from bacterial pathogens. This information would be available in the SRA run selector, but the output I get from SRAdb does not in…
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Load in store app.
Sync to datacollector app.
OrganismNameOriginal
Abiotrophia defectiva
Achromobacter (alcaligenes) xylosoxidans
Achromobacter anxifer
Achromobacter denitrificans
Achromobact…
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Interesting observations with respect to pancore publication:
- Clostridium botulinum: example of genomes that are so-called complete, but are not
- ???: example of incorrect taxonomic identification …
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Here are some issues I noticed when doing searches in the microbe genomes:
- If I paste the search term 'Yersinia pseudotuberculosis EP2/+' into the search area, the search seems to go into a never en…
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Using ncbi-genome-download 0.2.7 from bioconda in a python 2.7 Anaconda env:
Error does not occur when `-m` is left out
```
$ ncbi-genome-download -m ncbi-metadata.tsv -s refseq -F genbank -l compl…
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User [Daniel Kein](https://github.com/dankein) (daniel.kein@canada.ca) reports:
I can’t get the cgMLST schema for M. tuberculosis installed. M. tuberculosis is not present when I run the command: M…
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This gene:
fig|1205677.3.peg.1258
At PATRIC compare region view just show the originating genome and nothing else. At PubSeed I can see many other genomes. And I have seen this MANY times today!!
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it looks like strain isn't always appended to genome_name even though it exists.
sometimes it is genome_id:1458472.3
sometimes it isn't genome_id:1773.214
This makes it difficult to give consistent…
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The genome is Mycobacterium africanum
Genome id: 33894.6
Strain name is MAL020148