#Nanopore midnight protocol full#

Shipments to the rest of the world are made on Mondays to allow the full working week for packages to arrive.

Shipments to Canada, Norway, Korea and Japan are expedited Monday to Wednesday with Australia and New Zealand leaving our warehouses on a Friday. Products are shipped to customers within the USA and EU Monday to Thursday. Shipping and logistics:ДЇlow cells and kits are shipped together in an environmentally friendly temperature-controlled shipping box. As new mutations are identified in the SARS-CoV-2 lineages, we will continue to work closely with the community (including the entire ARTIC Nextwork, Nikki Freed, Olin Silander, Josh Quick, John Tyson, Nick Loman and many more) to rapidly respond and ensure performance of Oxford Nanopore Technologies' protocols are always kept up-to-date, providing the best performance for robust SARS-CoV-2 whole genome sequencing.Дeconvolution of barcoded sequencing data is supported by MinKNOW and Guppy software, which classify the barcode sequencing and sort reads into corresponding folders.ДЇlow Cell Wash Kits can be purchased here for running fewer numbers of barcodes. From the 1st February, we have included an additional primer 28 to address the drop out observed with the Omicron variant. The primers provided in this kit were initially designed by Freed et al., 2020, using the Primal Scheme. This expansion enables PCR tiling to generate overlapping amplicons across the whole SARS-CoV-2 genome before using the Rapid Barcoding Kit 96 (SQK-RBK110.96) to barcode and pool multiple samples together for sequencing. The expansion kit provides all reagents and primers required to generate reverse-transcribed and PCR-amplified material from SARS-CoV-2 RNA samples, without the requirement of purchasing further components from multiple external suppliers. The Midnight RT PCR Expansion (EXP-MRT001) is designed to be used with the Rapid Barcoding Kit 96 (SQK-RBK110.96) to provide all reagents needed for the complete workflow to sequence SARS-CoV-2 RNA samples.

Wish to multiplex samples to reduce price per sample.

Want to sequence the whole SARS-CoV-2 genome.

We suggest installing the Miniconda version which is relatively small and quick to install.

#Nanopore midnight protocol software#

Software will be installed using Conda вЂ“ a cross-platform package and dependency installer.ДЇor Conda installation instructions for your operating system go to. Once this is done, the bioinformatics and phylogenetics protocols can be performed largely off-line.

The steps in this document should be done and tested prior to sequencing, particularly if this will be done in an environment without internet access or where this is slow or unreliable.

It assumes familiarity with a UNIX-like bash command-line.

#Nanopore midnight protocol mac os x#

This could be Mac OS X (Yosemite or later), Linux (e.g., Ubuntu 16 or later), or Windows 10 Subsystem for Linux. These protocols instructions assume a 64-bit UNIX, Linux or similar environment. Preparation Equipment required: Laptop requirements for MinION: Intel i7 or Xeon processor 16GB RAM 1TB SSD hard drive USB 3 Full Oxford Nanopore Technologies lab and computing requirements are here.