About SemiMAGs
SemiMAGs is an online resource for Metagenome-Assembled Genomes (MAGs) based on PacBio HiFi sequencing technology. We have curated samples from various sources, including the human gut, sheep gut, and seawater, which have been sequenced using PacBio HiFi technology and subsequently binned using SemiBin2. The website showcases the quality, genomic content, and taxonomic annotations of MAGs obtained through PacBio HiFi sequencing.
If you utilize our platform, please cite：Pan, S.; Zhu, C.; Zhao, XM.; Coelho, LP. A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments. Nat Commun 13, 2326 (2022). https://doi.org/10.1038/s41467-022-29843-y
In this project, we used flye to do the assembly, and mapping long reads to the contig with minimap2. SemiBin2 is used to bin the contigs.
After binning, CheckM2, GUNC, tRNAscan-SE and barrnap are used to evaluate the MAGs.
Finally, GTDBTk is used to annotate the contigs.
If you have some questions, please contact Luis Pedro Coelho(luis@luispedro.org) and Shaojun Pan(shaojun1997777@gmail.com).