Table 4.
Visualization tools for assemblies
| Tool and references | Description | URL |
|---|---|---|
| Archive Viewer [224] | Web graphical interface to make contigs and trace data changes in the National Center for Biotechnology Information (NCBI) | http://www.ncbi.nlm.nih.gov/Traces/assembly/assmbrowser.cgi? |
| CBrowse [225] | SAM/BAM-based contig web browser for transcriptome assembly visualization and analysis | http://bioinfolab.muohio.edu/CBrowse/ |
| Consed [76] | Assembly finishing package; NGS compatible | http://www.phrap.org/ |
| ContigScape [226] | A Cytoscape plugin facilitating microbial genome gap closing | http://sourceforge.net/projects/contigscape/ |
| DNASTAR Lasergene [227] | Analysis suite with an assembly package | http://www.dnastar.com/ |
| EagleView [228] | An information-rich viewer for genome assemblies with data integration capability | http://www.niehs.nih.gov/research/resources/software/biostatistics/eagleview/ |
| Gap [100, 101] | A fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools | http://staden.sourceforge.net/ |
| Hawkeye [229] | An interactive visual analytics tool for genome assemblies. Detection of anomalies in data and visual identification and correction of assembly errors | http://amos.sourceforge.net/wiki/index.php?title=Hawkeye |
| Tablet [230] | A lightweight, high-performance graphical viewer for NGS assemblies and alignments | http://bioinf.scri.ac.uk/tablet |