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Hi , I had configured the NCBI STAT tool as per the steps mentioned in https://www.ncbi.nlm.nih.gov/sra/docs/sra-taxonomy-analysis-tool/ and was able to successfully run the input file given in Examp…
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Hi everyone,
I’ve been using the `EPA-NG` module along with the [SBDI-GTDB database](https://figshare.scilifelab.se/articles/dataset/SBDI_Sativa_curated_16S_GTDB_database/14869077) to perform phyloge…
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Hello all,
I downloaded and added all bacterial and archaeal species in NCBI to my specialized database. Only archaea and bacteria, as well as the human hs37 genome and decoy sequences. I gave the …
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## Summary:
We are using the MD5 checksum as a proxy for uniqueness in our FASTA format input genomes, where this is literally a primary key in the database. As a consequence we will be frequently …
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Firstly, I am in AWE of your work, and I hope to marry it with https://skewdb.org/ at my earliest convenience. This is database of GC skews of bacterial and archaeal chromosomes.
I downloaded http…
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## Expected Behavior
Searching proteins against a database with similar and exact proteins (from bacterial refseq proteome) should return hits with similar and exact matches.
## Current Behavior
Ru…
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When I downloaded the zip file in the link(https://github.com/NancyZxll/temperate-phage-active-prophage-detection/releases/tag/V1.0) and ran it according to the readme, the following error message app…
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Reduce the chance of erroneously depleting viral or bacterial sequences that have remote homology to human.
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Dear Maxime,
This is Jianshu, a bioinformatics PhD student at Georgia Tech. I am reaching out to you to discuss the possibility of applying the protein database structure you proposed in the kaamer…
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Hello,
This is Min-Soo Kim who is interested in your FCP. I am trying to do local installing the FCP, but I got an error at the step for NCBI bacterial and archaeal genome download.
I realized that …