Online documentation for the more recent programs, including.
File formats,
Gap4,
Trev and
Spin.
This documentation forms the basis of the printed manual as well as
online help and manual pages.
This document provides a summary of the mutation detection methods
included within the package. It consists of a brief guide, with screen
shots, covering the key details. A more detailed set of "course notes"
are being prepared to cover mutation detection.
This describes modifications to Phrap to allow it to work with
Experiment Files. This, coupled with a Phrap assembly menu in Gap4
gives easy integration. Additionally new editing features make problem
detection faster and consensus generation more reliable.
This contains documentation on the Tcl interfaces to gap4 and methods
of building your own plug-in packages to extend gap4. This, the first
draft, deals primarily with Gap4.
Due to there being so many conflicting definitions of the term
"contig" in use, this page describes the original
definition. It is also the definition used by the Staden Package.