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Download the Raw Sequences into Geneious
A Geneious Shared Database is set up for the CaBOL project. Please refer to the Geneious for CaBOL - Installation and Database Login guide to learn how to connect to the shared database.
Geneious Shared DB Folder Structure:
After connection you should create, establish, and stick some kind of recognizable folder-structure. We do it plate-wise like this:
Create the folder for the plate in the format CaBOL_xxxx (organism group) and a sub folder Raw data. Select this sub folder.
Click on the Biocode icon in the navigation bar of Geneious and then on Download Traces from LIMS.
In the pop-up window, enter the names of the two sequencing plates.
The raw sequences are now loaded into your raw traces folder and appear in the main window.
In the Geneious navigation bar, select Tools. Under Sequencing, select the appropriate binning profiles for vertebrates or invertebrates (Nextcloud folder Geneious; https://oc.zfmk.de/index.php/f/831677; files: GBOL_invert.binProfile and CaBOL_vert.binProfile).
