Package: ioncopy 2.2.2

ioncopy: Calling Copy Number Alterations in Amplicon Sequencing Data

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. Budczies (2016 Mar 15) <doi:10.18632/oncotarget.7451>.

Authors:Jan Budczies, Eva Romanovsky

ioncopy_2.2.2.tar.gz
ioncopy_2.2.2.zip(r-4.7-any)ioncopy_2.2.2.zip(r-4.6-any)ioncopy_2.2.2.zip(r-4.5-any)
ioncopy_2.2.2.tgz(r-4.6-any)ioncopy_2.2.2.tgz(r-4.5-any)
ioncopy_2.2.2.tar.gz(r-4.7-any)ioncopy_2.2.2.tar.gz(r-4.6-any)
ioncopy_2.2.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
ioncopy/json (API)

# Install 'ioncopy' in R:
install.packages('ioncopy', repos = c('https://budczies.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • coverage - Coverage data of 154 amplicons in 184 breast carcinomas

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.95 score 3 stars 4 scripts 287 downloads 3 mentions 7 exports 31 dependencies

Last updated from:466f696ef9. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK99
source / vignettesOK199
linux-releaseOK106
macos-releaseOK129
macos-oldrelOK207
windows-develOK58
windows-releaseOK69
windows-oldrelOK65
wasm-releaseOK82

Exports:assess.CNAcalculate.CNcall.CNAheatmap.CNAread.coveragesrunIoncopysummarize.CNA

Dependencies:base64encbslibcachemclicommonmarkdigestfastmapfontawesomefsgluehtmltoolshttpuvjquerylibjsonlitelaterlifecyclemagrittrmemoisemimeotelpromisesR6rappdirsRcpprlangsassshinysourcetoolswithrxtablezip