ioncopy-package: Calling copy number alterations in amplicon sequencing data

In ioncopy: Calling Copy Number Alterations in Amplicon Sequencing Data

Description

Method for the calculation of copy numbers and calling of copy number alterations. The algorithm uses coverage data from amplicon sequencing of a sample cohort as input. The method includes significance assessment, correction for multiple testing and does not depend on normal DNA controls.

Details

Package:	ioncopy
Type:	Package
Version:	2.2.2
Date:	2020-08-07
License:	GPL-3

Author(s)

Maintainer: Jan Budczies <[e-mail]>
Eva Romanovsky <[e-mail]>

References

Jan Budczies, Nicole Pfarr, Albrecht Stenzinger, Denise Treue, Volker Endris, Fakher Ismaeel, Nikola Bangemann, Jens-Uwe Blohmer, Manfred Dietel, Sibylle Loibl, Wilko Weichert, Carsten Denkert: Ioncopy: a novel method for calling copy number alterations in amplicon sequencing data including significance assessment. Oncotarget 7(11):13236-47, 2016, doi: 10.18632/oncotarget.7451.

Jan Budczies, Nicole Pfarr, Eva Romanovsky, Volker Endris, Albrecht Stenzinger, and Carsten Denkert: Ioncopy: an R Shiny app to call copy number alterations in targeted NGS data. Submitted.

ioncopy documentation built on Aug. 11, 2020, 5:08 p.m.