Automating microbial genome sequence decontamination

Single cell genomics and metagenomics are pioneering techniques that have helped researchers assess environmental microbial community structure and function. As projects applying these techniques scale up, however, researchers are hindered by the lack of a high-throughput process to review assembled genome sequences. Currently removing the contaminant sequences from the microbial genomes being uploaded to public databases is a manual and time-consuming process that requires information about the contaminant sequences in order to remove them.

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