re-DOT-able
| Function | re-DOT-able is a desktop application which allows the comparison of two sets of DNA/RNA sequences through the creation of an interactive dot plot. |
|---|---|
| Language | Java (>=v1.6) |
| Requirements | None |
| Code Maturity | Beta - still under active development |
| Code Released | Yes, under GPL v3 or later. |
| Initial Contact | Simon Andrews |
Download Now |
|
The re-DOT-able program is a pairwise comparison tool which can compare two sets of DNA/RNA sequence, which can be up to several megabases in size. It was originally written to compare bacterial genome assemblies but can be use used for any large sequences, or sequence sets.
The program creates a dot plot which is a graphical way to look at the sequence similarity relationships between pairs of sequences. It is a simple way to summarise a large amount of information to gain an overall view of the relationships between two sequences.
Features
- Loading of two (multi)fasta format sequence files which can be several megabases in size
- Efficient calculation of a word based dotplot
- Finds matches on the forward and reverse strands
- Automated re-ordering of seuqences within a set to a reference
- Manual moving, reverse complementation, highlighting and hiding of sequences
- Zoom in and out of the view
- Export graphics as PNG or SVG
- Export re-ordered sequences in fasta format
- Automated creation of dotplots from the command line
Changelog
- 26-11-18: Version 1.1 released
- 17-09-18: Version 1.0 released
- 15-08-18: Version 0.1 released