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Hello,
I installed saccharis_2 on an HPC cluster using conda.
The version I am running is 2.0.0.dev22.
I am trying to test saccharis using the following command:
```
saccharis \
--family GH…
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Hi all,
I am analyzing the data from the table that dbCAN gives me and I find that there are entries in which the repeated substrate appears, for example, some appear as a substrate "chitin" and o…
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## The need
[dbCAN3](https://bcb.unl.edu/dbCAN2/) contains [dbCAN_sub](https://bcb.unl.edu/dbCAN_sub/) which enables substrate annotation for CAZymes. This upgrade will help catalyze CAZyme-related…
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Hello @linnabrown
I have the output for the v4 of the dbcan software generated using this command
docker run -v ~/cazymes/data_db_rwll:/rwll -it dbcan:latest /rwll/run1.faa protein --out_dir /rwl…
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## Short description of the problem
When we annotate a contigs database with `anvi-run-cazymes`, most of the resulting hits in the gene functions table have `-` for an accession value:
It is…
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I'm running the dbcan on faa files on linux to predict the CAZymes and saw that I can get a protein sequence of the gene (this link shows an output of the gene with the protein sequence: https://bcb.u…
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Dear @yinlabniu,
Thank you again for a very important tool to annotate CAZymes and identify CGCs in the microbial genomes of interest.
I am interested in examining how complete are the CGCs in my …
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Hello,
I am working on identifying potential PULs in my metagenomes. I've run my dereplicated bins through prokka and dbCAN. I have uploaded the fasta file and prokka annotation to Geneious which …
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Dear Developers,
I am trying to do CAZymes analysis using my mRNA reads. I downloaded a copy of the database (CAZyDB.08062022.fa), indexed it to Diamond format, and then performed a diamond blast. …
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Hi,Chao
Can you help me explain the reason for this?
'mv: cannot stat 'METABOLIC_result.xlsx': No such file or directory'
[2023-02-07 16:36:56] The hmmsearch is running with 40 cpu threads...
[2…