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When running `build_kraken`, the `add_existing` process fails with messages such as
```
rsync_from_ncbi.pl: unexpected FTP path (new server?) for https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/7…
cschu updated
6 months ago
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Is it possible to specify multiple databases for classification, as I have both bacteria and fungi in my species and therefore want to isolate based on classification.
Any help would be appreciated…
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Hello,
I'm facing an issue getting the debugger to start.
## Test Case
consider the following simple go project:
```
~/workspace/gotest/
├─ pkg/
│ ├─ file.go
├─ main.go
├─ go.mod
```
`…
9albi updated
5 months ago
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Hello, in the **legacy UniRef** search, this returns 9 results:
uniprot:((ec:1.10.3.15) (taxonomy:bacteria))
even though the advanced query builder reformats this search as
uniprot:"…
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I am wondering why my output from classify_bins module does not result in confidence values.
in the user manual it says "The number next to each classification is the confidance (in percent) of th…
yunha updated
5 years ago
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Some / many of our curiosities with MBD data could be related to non target species in data
see https://github.com/laurahspencer/DuMOAR/issues/26#issuecomment-1613501939
I think it is worth wh…
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We have Chromista in our taxon name cache:
```
isb_2=> select distinct kingdom from taxonomyname;
kingdom
----------------
Archaea
Bacteria
Viruses
incertae sedis
Fungi
Chro…
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I tested the construction of the bacterial index on a Laptop with OS X Sierra and 16 GB RAM. Most of the steps are fine and fit well in the memory, except "CONSTRUCTING SA + KLCP IN PARALLEL". We shou…
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Hello:
This is a great software. If I want to use this software on plants and want to find HGT events from bacteria and fungi, do I have to include plants or just bacteria and fungi in my database .
…
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Hi,
I am trying to use the function taxa.compare.
I got a data.frame with 2 factors : chimio : Pre, Post and the number of the patients.
Here the structure of the data.frame df:
chimi…