Gap5

Gap5 is a DNA sequence assembly visualiser and editing tool. It permits low level base by base editing as well as larger scale contig rearrangements such as complementing, joining and breaking apart contigs. Input can be from CAF, ACE or more typically SAM, BAM and CRAM file formats.

Gap5 is a DNA sequence assembly visualiser and editing tool. It permits low level base by base editing as well as larger scale contig rearrangements such as complementing, joining and breaking apart contigs.

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.

Further information

BSD Open Source License.

Contact

If you need help or have any queries, please contact us using the details below.

James Bonfield <jkb@sanger.ac.uk>


Sanger Institute Contributors

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James Bonfield

Principal Software Developer

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Andrew Whitwham

Senior Software Developer