metagenome of Frasassi streamer biofilm: string streamer net 2.1 day 4
Raw sequence reads were flashed and quality-trimmed, using a Quality Control pipeline combining Trimmomatic and Flash (www.githib.com/mooreryan/qc). The quality controlled reads were assembled de novo to contigs using SPADES 3.8.8. The quality controlled reads were then recruited against the reconstructed contigs to establish the coverage information using bowtie2. The quality controlled contigs over 2kb were then binned by 4 different binning tools: MetaBAT (using the options very sensitive and super specific), MaxBin, CONCOCT and BinSanity. All the metagenome-assembled genomes (MAGs) produced by the different tools were then put into DAS_Tool to dereplicate and keep the best MAGs from each tool previously used. The quality of the MAGs obtained from DAS_Tool was checked using the Typical Workflow of CheckM (https://github.com/Ecogenomics/ CheckM/wiki/Quick-Start#typical-workflow.