Preprocessing of sequencing reads included paired-end joining,
demultiplexing, and quality filtering using Illumina software and fastq-join.
The Accel-NGS Unique Dual Indexing Kits are an essential addition to NGS workflows, as current tools can suffer from
demultiplexing problems caused by index read errors, PCR-induced chimerism associated with multiplexed hybridisation capture workflows, and index hopping on patterned flow cells, it said.
However, for any system to be viable, a system for multiplexing and
demultiplexing (mux/demux) signals is a fundamental requirement.
The channels of
demultiplexing and filtering are also performed using FSS and polarizing grid in the MARSCHALS with three center bands at 300, 325, and 345 GHz when the incident angle has 45[degrees] [6] and so on.
[27.] Koshiba, M., "Wavelength division multiplexing and
demultiplexing with photonic crystal waveguide couplers," J.
After
demultiplexing and FASTQ generation performed with bcltofastq function developed by Illumina, the paired-end reads were trimmed using AdapterRemoval (https://github.com/MikkelSchubert/ adapterremoval) with the aim of removing stretches of low-quality bases (<Q10) and Truseq/Nextera rapid capture adapters present in the sequences.
These processes include
demultiplexing (Table 2), quality analysis, mapping of the reads to a reference genome (resequencing), and variant identification/annotation.
After sequencing and standard barcode
demultiplexing, NZGL used FASTQ-MCF (17) to perform quality control procedures to remove any PhiX control library reads and adaptor sequences.
First, the "Stacks" script process_radtags was used to filter raw reads for average quality and perform
demultiplexing based on barcode sequence.