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anuradhawick / MetaBCC-LR

Reference-free Binning of Metagenomics Long Reads using Coverage and Composition
https://doi.org/10.1093/bioinformatics/btaa441
MIT License
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New PacBio HiFi data available for testing #8

Open dportik opened 3 years ago

dportik commented 3 years ago

Hello, I am very interested in using your approach for binning HiFi reads. I plan to test it on some internal datasets, but wanted to make you aware of a new dataset I have made available on NCBI. The sample is ZymoBIOMICS gut microbiome standard D6331, a community containing 21 species in staggered abundances that mimic the human gut microbiome. This mock community also contains 5 strains of E. coli. All species and strains in this sample have reference genomes available, which can be useful for evaluating results. This sample was sequenced three times using different library prep methods (our standard input, low input, and new ultra-low input protocol). The standard and low input are PCR-free preps, whereas Ultra-low has an amplification step in library prep.

Additional information and the three HiFi fastq files are available on the NCBI Project page: http://www.ncbi.nlm.nih.gov/bioproject/680590

The SRA accessions are as follows:

Standard Input: SRX9569057

Low Input: SRX9569058

Ultra-Low Input: SRX9569059

I hope these prove useful for continued development of MetaBCC-LR! I am looking forward to using this tool for my work.

anuradhawick commented 3 years ago

Hi,

Thank you very much for the update and information. We are working on the next update on MetaBCC-LR. I really appreciate your update on the datasets. Right on time for testing our new work!

Best wishes on your work. Feel free to get in touch if you run into problems or need help with anything.