Home
Welcome to Meander project. Meander is a java standalone application for visualization of genomics based on Read Depth (RD) and Pair-End (PE) information. It is mainly developed to visually discover and explore structural variations in a genome. Meander utilizes both a linear (1024 pixels) and a Hilbert curve-based representation (2D plane of 512x512 pixels) to visualize genomic variations. It is able to show data 5 different resolution levels while it can additionally overlay already predicted variations from external software. It supports a comparison of four different samples a
gainst a common reference simultaneously while it is able to highlihght SVs supported by double evidence (RD + PE)
Meander is a powerful, easy-to-use tool for comparative genomics aiming to aid researchers in identifying SVs that might be causative for various genetic disorders.
Basic features
Interactive zooming
Interactive data filtering
Dynamic navigation
Overlay of predicted structural variations
Zooming in at five different resolutions
Data integration with UCSC genome browser
Highlighting areas and variations of double evidence (RD+RP information)
Java-based Standalone application for any platform (programmed in Java and processing.org languages)
Open source
Read-Depth (RD )Information
Pair-End (PE) information
Switching between views for RD only, RP only or combination of RD+RP to show double evidence for a variation
Hilbert curve-based visualization (512x512 pixels)
Linear Visualization (512 pixels)
Visualization of sample or reference individually
Comparison between up to four samples against a reference simultaneously
Rich color schemes to show various types of structural inter/intra chromosomal variations
Please cite:
Meander: visually exploring the structural variome using space-filling curves.
Pavlopoulos GA, Sifrim A, Sakai R, Kumar PD, Voet T, Moreau Y, Aerts J.
Nucleid Acid Research 2013, 1:9 doi:10.1093/nar/gkt254 PMID:23605045