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Hello dbcan devs!
Thanks for developing the dbCAN command line tools, and thanks for providing such helpful and detailed documentation and tutorials!
I'm using dbCAN to annotate CAZymes/CGCs/su…
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### Report
I noticed that there is no information about the GT family in either fam-substrate-mapping-08252022.tsv or fam-substrate-mapping-08012023.tsv, but the results from dbcan_sub do include inf…
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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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Hi,
I installed saccharis 2 via conda in a separate env.
When I try running saccharis via command line
`saccharis.screen_cazome --fasta_file GH2_filter_test.fasta --out_folder out_test --threads…
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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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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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## 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,
When I use METABOLIC/METABOLIC-C.2nd_run.pl, I get the following error message. File "All_gene_collections_mapped.depth.217pc.txt " and "MW-score_result.txt" are empty. Looking forward to you…