Raw reads: CCMP2758-gDNA-Illumina-after_removing_contaminant_reads
Reads likely not belonging to contamination. All raw reads were initially assembled using metaSPAdes in hybrid mode (v 3.14.1). Contigs likely belonging to contaminants were identified by asssessing the outputs of CAT (v 5.2.3, and running Prodigal (v 2.6.3) and DIAMOND (v 2.0.6)), contig coverage using Minimap2 (v 2.17) and the GC content of each contig using a custom scrip. Reads mapping to contigs likely belonging to contaminants were identified and discarded. This file contains the remaining short reads. The remaining short and long reads reads were assembled using SPAdes in hybrid mode. Contigs were assembled into scaffolds using OPERA-LG (v 2.0.5). Contigs likely belonging to contaminants were again identified and removed.