The findings and conclusions in this document and the attendant repository are those of the author and do not necessarily represent the official position of the Centers for Disease Control and Prevention. Submitting to Public Sequence Repositories.Bioinformatic Tools, Scripts and Workflows.In the meantime, I'll continue to add and mirror useful resources here as they become available. Please feel free to suggest additions, edits, clarifications and corrections - either by posting an issue, filing a pull request or by contacting me directly by email or twitter. It has incorporated collaborative edits from more than two dozen submitters throughout the world, and is actively maintained by Michael Weigand and the CDC TOAST Team. This collection was originally established, maintained and curated by Duncan MacCannell from the Office of Advanced Molecular Detection ( AMD) at the Centers for Disease Control and Prevention ( CDC). While some of the resources here are directed specifically to US state and local public health laboratories in support of diagnostic testing, sequencing and response, we hope that this is a useful resource for the global laboratory community, as we respond to this pandemic threat. This is admittedly a limited first draft, but will continued to collate useful information as additional protocols, tools, and resources are added, and as best practices are identified. The various tools and features of CLC Main Workbench are mentioned below: Sequence Editing and Viewing CLC Main Workbench is a complete and all-rounder package for thorough analysis.This document repository is meant to serve as the start of a crowd-sourced collection of information, documentation, protocols and other resources for public health laboratories intending to sequence SARS-CoV-2 coronavirus samples in the coming weeks. This feature offers to view the sequence. You can zoom in, zoom out, and edit the sequence.On double-clicking the sequence in the navigation area, the sequence of amino acid or DNA or RNA will appear on the view panel. Find function to search within a sequence.Annotation type and layouts, restriction sites, motifs, the coloring of residues.Sequence label- adding details such as name, accession, common name, etc.The position of sequences- shows the position of residue in a protein/DNA sequence.Double-stranded- applies only to the double-stranded DNA sequence.Wrap sequences- no wrap, automatic wrap, fixed wrap.Spacing- no spacing, every 10 residues, every 3 residues frame 1, every 3 residues frame 2, every 3 residues frame 3.There are several choices in Sequence Layout. You can view the protein structure in 3D.It allows the importing of molecule structure files from the Protein Data Bank (PDB) or its file in the system. The visualization can be customized with different colors and styles of representation. There are some tools present in the 3D viewer that helps in linking the sequence and the structure.You can BLAST search the structure file against the PDB database.The visualization settings include- hydrogens, fog, clipping plane, 3D projection, coloring, etc. They link the sequence alignments to the molecule structure. The Protein structures can be aligned too.The transfer of annotation between the sequence and structure is feasible too.
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