Gap5 is a DNA sequence assembly visualiser and editing tool.
Input and outputs supported include SAM, BAM and CRAM file formats along with the less used formats CAF and ACE.
Gap5 is part of the Staden Package, a broad set of software tools originally developed for many years by Rodger Staden at the MRC Laboratory of Molecular Biology, Cambridge UK.
The Template Display showing read pairs, their mean insert size, orientation, template and read depth and annotations.
The Gap5 Contig Editor showing sequence differences.
Go to the https://sourceforge.net/projects/staden/ project page and follow the links to files -> staden. (https://sourceforge.net/projects/staden/files/staden/).
Gap5 is one of the tools included in the Staden Package.
BSD Open Source License.