-
Hi,
I am trying MetONTIIME for the analysis of full 16S ONT sequences, everything was running smoothly until I reached the diversity analysis step where I got the error below ( please find the full l…
-
Hi,
I am trying to download all bacterial proteomes from NCBI and the download process crashes at the exact same step with the following error:
Error: The FTP site 'ftp://ftp.ncbi.nlm.nih.gov/' …
-
Basically, we expect a taxonomy created in a form similar to taxonkit's taxdump.
-
Hello Wei Shen,
This is not strictly an error with taxonkit create-taxdump, but more of a feature request?
I'm trying to use the taxid.map generated using taxonkit create-taxdump for the GTDB da…
-
My nextflow pipeline includes downloading and uncompressing the taxdump files. My pipeline always re-runs this step, even when using caching in nextflow (`-resume`). I'm wondering if the issue is due …
-
Thanks for sharing!
When I attempt to run this command:
taxonkit create-taxdump -K 1 -P 3 -C 5 -O 7 -F 9 -G 11 -S 13 -T 15 \
--rank-names "realm","kingdom","phylum","class","order","family","…
-
### Operating System
macOS
### Other Linux
_No response_
### Workflow Version
wf-metagenomic v2.5.0
### Workflow Execution
EPI2ME Desktop application
### EPI2ME Version
_No response_
### CLI…
-
Hi @NuruddinKhoiry I pip installed blastMining v1.2.0 as per your suggestion and tried running Method A but it still gives me an error (possibly related to taxonkit flag?). Below are the command-lines…
-
Hi,
I'm trying to use taxonkit create-taxdump but I have two questions:
1) I'm using the following command but all my "accession" names are being assigned as "no rank " instead of subspecies. Am…
-
We should consider adding a rule or two to automatically compute alpha diversity and maybe do some simple beta-diversity plots on all input samples, as that is often requested by people.
I'm think…