Sequence segmentation with changeptGUI

Edward Tasker, Jonathan Keith

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

1 Citation (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

Cite this

Tasker, E., & Keith, J. (2017). Sequence segmentation with changeptGUI. In J. M. Keith (Ed.), Bioinformatics Volume I: Data, Sequence Analysis, and Evolution (2 ed., Vol. 1525, pp. 293-312). (Methods in Molecular Biology; Vol. 1525). Humana Press. https://doi.org/10.1007/978-1-4939-6622-6_12