id	author	title	date	pages	extension	mime	words	sentences	flesch	summary	cache	txt
cord-103213-oinumv1z	Kalantar, Katrina L.	IDseq – An Open Source Cloud-based Pipeline and Analysis Service for Metagenomic Pathogen Detection and Monitoring	2020-04-18		.txt	text/plain	10494	562	46	The IDseq Portal accepts raw mNGS data, performs host and quality filtration steps, then executes an assembly-based alignment pipeline which results in the assignment of reads and contigs to taxonomic categories. First, relevant QC metrics and pipeline run information, including the number of reads remaining at each step of the host and quality filtering steps as well as estimates of internal control abundances are provided for each sample (Figure 2AB, Methods) . The idseq-bench tool was used to generate 17 simulated NGS samples from Rhinovirus C genomes at varying levels of divergence (after in-silico forward evolution from a reference sequence obtained from the NCBI database), ranging from 100% identical to the reference sequence to 25% similar (at the nucleotide level) (Methods, Figure 4A , Table S3 ).	./cache/cord-103213-oinumv1z.txt	./txt/cord-103213-oinumv1z.txt