Tips And Tricks

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

How to Change the Temp Folder Location for Blast2GO

Blast2GO can handle big data, but it needs plenty of free disk space in the systems temporary files folder. If you run into troubles with a shortage of disk space, follow this guide to manually change the location of the folder for Blast2GO temporary files to e.g. another partition.

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How to Set Maximum Memory for Blast2GO

Blast2GO automatically reserves up to 80% of the available system memory (i.e. RAM), which is fine in most cases. However, sometimes and especially on Linux, this can lead to excessive swapping and will slow down Blast2GO. Follow this guide to manually change the maximum amount of memory Blast2GO will be allowed to use.

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How to run Blast2GO installer in Linux systems?

To install Blast2GO in Linux systems follow the next steps: 0. Open a terminal in the folder where you have downloaded the installer. 1. Unzip the file: tar -xvf 2. Make sure the .sh file has execution permissions: chmod +x 3. Execute the .sh file: ./ An installation wizard should open. Just follow the instructions on screen. Note:

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Reformat Uniprot/Swissprot Species Distribution

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

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 the

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Format fasta file blast – Support

How to create a Fasta file database for local Blast and to import XML results successfully into Blast2GO (Note: This tutorial is based on the NCBI blast binaries released in 2014 and some parameters might have changed since then) The user can blast their sequences against their own formatted database. One has to be careful when formatting an own database

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