Tips And Tricks

Mini-tutorials for common use-cases and to address frequently asked questions FAQs

Reformat Uniprot/Swissprot Species Distribution

Mariana Monteiro November 23, 2015

Reformat/adapt Blast XML results against a custom UniProt sequence database to generate a species distribution chart Problem: Empty species distribution chart Solution: Reformat your SwissProt/UniProt blast XML results The species distribution chart is a good way to visualise the species found for all blast hits for a given dataset. It is possible to generate this chart with OmicsBox from the toolbar: functional

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Select .pal files to Run LocalBlast

Run Local Blast within OmicsBox

Mariana Monteiro October 16, 2015

OmicsBox allows running Blast locally. The blast algorithm will run on the user’s computer against a database that is installed locally. In order to do so, we have to either download a pre-formatted NCBI database or format our own database (see this tutorial until step 3). Pre-formatted databases can be downloaded directly from the NCBI ftp or via a Perl script provided by

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Make Blast Database Menu

How to create a custom NCBI Blast Database from a FASTA File

Mariana Monteiro November 28, 2014

Update: Since Blast2GO v.4 or in OmicsBox you can create your Blast Database directly from within the application. See screenshots below. Note: This tutorial is based on the NCBI blast binaries released in 2014 and some parameters might have changed since then If you want to blast your sequences against an own own database you need to create a custom

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