ugene(1)
NAME
UGENE - integrated bioinformatics suite
SYNOPSIS
ugene [filename]
DESCRIPTION
UGENE is a cross-platform visual environment for DNA and protein
sequence analysis. UGENE integrates the most popular bioinformatics
computational algorithms and provides an easy-to-use GUI for performing
complex analysis of the genomic data.
The main features of UGENE:
* View and analysis of annotated DNA or protein sequences
* Chromatograms visualization and editing
* Integrated 3D viewer for files in PDB and MMDB formats
* Integrated support of search requests to NCBI databases
* Multiple sequence alignment with port of MUSCLE
- * Easy-to-use search with HMM profiles using adopted HMMER2 pack
- age
- * Integarion of the newest methods for HMM profile search based on
- HMMER3
- * Modern protein secondary structure prediction algorigthms based
- on GORIV and PsiPred
- * Integration of PRIMER3 package
- * Search for transcription factor binding sites in DNA sequences
- * Search for restriction enzymes
- * Search for direct and invert repeats
- * Search for ORFs
- * Designer for complex computational workflows
- UGENE has modular structure and almost all its functionality comes within plugins. Internally UGENE is designed with support of parallelism to make profit from using multicore computers. Every computational task in UGENE is performed in background and does not block user interaction with graphical interface.
OPTIONS
- [filename]
- Specifies the file to open when UGENE starts. The filename may specify both project file or a single document. UGENE also supports handling of remote files - http link to remote resource can be passed as an argument. If no arguments provided UGENE will start with an empty workspace.
SEE ALSO
http://ugene.unipro.ru/manual for user manual.
BUGS
If you find a bug, please report it at ugene@unipro.ru.
AUTHOR
- UGENE was created by Unipro (http://unipro.ru)