Plugins: UGENE - Unipro Genome Analysis Suite

Plugins

3D Structure Viewer Vizualization of biological 3D molecular structures. (read more..) Available from version 1.3
Workflow Designer Allows to create and run complex computational workflows. (read more..) Available from version 1.3
ChromaView DNA chromatograms viewer/editor. (read more...) Tutorial: advanced chromatogram analysis Available from version 1.2
DNA Annotator Search for sequence regions annotated with predefined set of annotations. (read more..) Available from version 1.1
DNA Export Set of DNA sequence export and conversion utilities. (read more..) Available from version 1.1
DNA GraphPack Draws graphs with various DNA sequence statistics. (read more..) Available from version 1.0
DNA Statistics Generates exportable statistical reports for sequence and alignments (read more..) Available from version 1.4
ORF Marker An utility to find open reading frames in DNA-sequences. (read more..) Available from version 1.2
Remote Query Annotates sequence by executing and scheduling requests to remote databases like NCBI-blast, CDD ... (read more..) Available from version 1.2
Repeat Finder Finds direct and invert repeats in DNA sequences (read more..) Available from version 1.4
Restriction Enzymes Marks restriction enzymes cut sites in DNA sequences (read more..) Available from version 1.4
SecStructPredict Protein secondarty structure prediction. (read more..) Available from version 1.5
SITECON Search for transcription factor binding sites in DNA sequence. (read more..) Available from version 1.3
Smith-Waterman search A complete Smith-Watertman search algorithm implementation (read more..) Available from version 1.4
HMM2 Sequence analysis with profile hidden Markov models. A graphical tools for using HMMs based on Sean Eddy's HMMER 2 tool codebase. (read more..) Available from version 1.1
HMM3 The newest profile hidden Markov models tools. Plugin contains an easy to use tools for HMMs build and search based on Sean Eddy's HMMER 3 tool. (read more..) Available from version 1.5
uMUSCLE and uMUSCLE4 A multiple alignment algorithm for protein and nucleotide sequences. UGENE contains graphical port of Robert C. Edgar's MUSCLE command line tool. Beginning from v1.5.2 UGENE also supports the newer tool — MUSCLE 4. (read more..) Available from version 1.2
Bowtie and UGENE Genome Aligner plugins A short reads alignment to reference sequence algorithms. UGENE contains plugin UGENE genome aligner and graphical port of short read aligner Bowtie. (read more..) Available from version 1.7
Weight matrix plugin Search for transcription factor binding sites in DNA sequence. UGENE contains plugin for searching transcription factor binding sites with using position weight matrix. (read more..) Available from version 1.7
Dotplot Builds dotplot for sequences (read more..) Available from version 1.7.1

Plugins

3D Structure Viewer

Workflow Designer

ChromaView

DNA Annotator

DNA Export

DNA GraphPack

DNA Statistics

ORF Marker

Remote Query

Repeat Finder

Restriction Enzymes

SecStructPredict

SITECON

Smith-Waterman search

HMM2

HMM3

uMUSCLE and uMUSCLE4

Bowtie and UGENE Genome Aligner plugins

Weight matrix plugin

Dotplot