UGENE Mini-Tutorials: Export Workflow, Run Workflow and more Translate DNA, Export a workflow, run a workflow in the command line 1. How-to in UGENE: How to translate DNA sequences into amino acid sequences? If you want to translate DNA sequences into amino acid sequence, you can use the pre-defined workflow sample of UGENE Workflow Designer: more…

Tutorial: Export Multiple Alignment Consensus This tutorial is about exporting of the consensus sequence from multiple alignments. General Information A consensus sequence in a global sequence alignment is just a representation of the most frequent bases in a nucleotide alignment or in a multiple protein alignment. For instance if you have an A letter in 10th more…

UGENE Tips: Bookmarks, Public Databases and more Tabbed Documents By default different documents are opened by UGENE in separate windows which can be switched by "Ctrl+Tab" shortcut or the "Window" menu on the main menu bar. But those, who are used to working with a few documents at the same time, can find tabbed document view more…

UGENE 1.14 List of Features Here we discuss the hottest topics introduced by our users and show some helpful tips for using UGENE, a free crossplatform genome analysis suite.  In this tutorial, we will show you a brief overview of the new features of UGENE 1.14. The new useful thing is the help system embedded more…

Tutorial: Practical Tasks of Molecular Biology with UGENE In this tutorial we will learn practical tasks of molecular biology using UGENE. Analyzing an unknown virus This task is devoted to an analysis of an unknown DNA sequence. As an example we will analyze a virus, but in principle this could be any other DNA sequence. more…

Tutorial: How to Perform BLAST Search in UGENE to BLAST Two Sequences or More Performing BLAST search and constructing custom BLAST database is available from UGENE with the External Tool Support plugin. In the Settings→Preferences→External Tool Support menu there are two new parameters for selecting the blastall and formatdb executables paths. Prepare BLAST Database Now more…

Tutorial: How to Add Scripts To Workflows in UGENE We are about to find out how to use scripts for defining the workflow software processes parameters values. UGENE Workflow Designer allows you to create and run complex computational workflows. The scripting mechanism is aimed to provide additional flexibility for defining the workers (or processes) behavior more…

Tutorial: How to Use Primer3 to Design Primers in UGENE UGENE Primer3 primer design plugin allow designing primers. You can suggest Polymerase Chain Reaction primers to create sequence tagged sites for hybrid mapping, or to amplify sequences for single nucleotide polymorphism discovery, and for other applications. The Primer3 primer design plugin is based on the more…

Tutorial: How to Build Dot Plot in UGENE Dotplot plugin allows the graphical comparison of two biological sequences with identifying the regions of similarity. Today we will consider such a comparison and we are going to have a look at how UGENE dotplot maker works. Setting Dot Plot Data The opened project contains two more…

Tutorial: UGENE as a Tandem Repeat Finder UGENE tandem repeat finder provides a fast and memory efficient way to search for short tandem repeats. You can use it for pedigree determination or for other purposes like finding variable number tandem repeats. Preparing Data I will open a large sequence this time. Namely this hypothetical protein more…