Sequence segmentation with changeptGUI

Edward Tasker, Jonathan Keith

Research output: Chapter in Book/Report/Conference proceedingChapter (Book)Researchpeer-review

2 Citations (Scopus)

Abstract

Many biological sequences have a segmental structure that can provide valuable clues to their content, structure, and function. The program changept is a tool for investigating the segmental structure of a sequence, and can also be applied to multiple sequences in parallel to identify a common segmental structure, thus providing a method for integrating multiple data types to identify functional elements in genomes. In the previous edition of this book, a command line interface for changept is described. Here we present a graphical user interface for this package, called changeptGUI. This interface also includes tools for pre-and post-processing of data and results to facilitate investigation of the number and characteristics of segment classes.

Original languageEnglish
Title of host publicationBioinformatics Volume I
Subtitle of host publicationData, Sequence Analysis, and Evolution
EditorsJonathan M. Keith
Place of PublicationNew York NY USA
PublisherHumana Press
Pages293-312
Number of pages20
Volume1525
Edition2
ISBN (Electronic)9781493966226
ISBN (Print)9781493966202
DOIs
Publication statusPublished - 2017

Publication series

NameMethods in Molecular Biology
Volume1525
ISSN (Print)10643745

Keywords

  • Functional element discovery
  • Genome segmentation
  • Model selection
  • Multiple change-point analysis

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