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when trying to add NCBI taxonomy information while running in nucleotide mode (`-z`), it doesn't seem to be pulling the taxid info, as these messages are popping up and there is no tax added in the ou…
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Hi there, when i use SMTa for microbe analysis in visium data and run SMTa start from spaceranger output
(Human Intestine Cancer (FPPE) data from https://www.10xgenomics.com/datasets/human-intestine-…
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Similar to the "NCBI Postgres database column to NMDC slot names" mapping file that we have in `nmdc-schema`: https://github.com/microbiomedata/nmdc-schema/blob/main/assets/ncbi_mappings/ncbi_pg_db_fi…
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Hello,
I am trying out fantaxtic. I am having some issues though in that it apparently is seeing some of the sample names as being duplicate.
The code I am using is as follows and the code itself wo…
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I installed PGAP and am running it using the following command. However, I am not getting output results files and the pgap generates an error
##install
./pgap.py --update
##running
python3 /…
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Hello!
I have used diamond to obtain hits with public databases and then filtered my data using Blobtools. I have used the commands specified on your webpage (https://blobtoolkit.genomehubs.org/blo…
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I will try to get the nuccore accessions, taxid where available
low priority request, but would be good for identifying Diphtheria
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I'm [creating a Tripal module](https://github.com/NAL-i5K/tripal_eutils) that imports NCBI XML and creates chado records, as well as linked records.
I think it would be neat to have a recommended, …
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### Description of the bug
I am running into an issue when running hybrid assembly with ONT long reads and Illumina short reads. The error is at line 429 in readassembly.nf and states that 'QC_2.out'…
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Hi @brennanpincardiff,
very useful package!
I have a similar issue as described at [https://github.com/brennanpincardiff/drawProteins/issues/13#issuecomment-444105210](https://github.com/brennan…