Package: ACNE 0.9.1

ACNE: Affymetrix SNP Probe-Summarization using Non-Negative Matrix Factorization

A summarization method to estimate allele-specific copy number signals for Affymetrix SNP microarrays using non-negative matrix factorization (NMF).

Authors:Maria Ortiz [aut], Henrik Bengtsson [aut, cre, cph], Angel Rubio [aut]

ACNE_0.9.1.tar.gz
ACNE_0.9.1.zip(r-4.5)ACNE_0.9.1.zip(r-4.4)ACNE_0.9.1.zip(r-4.3)
ACNE_0.9.1.tgz(r-4.4-any)ACNE_0.9.1.tgz(r-4.3-any)
ACNE_0.9.1.tar.gz(r-4.5-noble)ACNE_0.9.1.tar.gz(r-4.4-noble)
ACNE_0.9.1.tgz(r-4.4-emscripten)ACNE_0.9.1.tgz(r-4.3-emscripten)
ACNE.pdf |ACNE.html✨
ACNE/json (API)
NEWS

# Install 'ACNE' in R:
install.packages('ACNE', repos = c('https://henrikbengtsson.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/henrikbengtsson/acne/issues

On CRAN:

acghcopynumbervariantssnpmicroarrayonechanneltwochannelgenetics

3.18 score 2 scripts 395 downloads 3 mentions 22 exports 25 dependencies

Last updated 12 months agofrom:7f31698ad0 (on master). Checks:5 OK, 2 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKJan 12 2025
R-4.5-winNOTEJan 12 2025
R-4.5-linuxNOTEJan 12 2025
R-4.4-winOKJan 12 2025
R-4.4-macOKJan 12 2025
R-4.3-winOKDec 13 2024
R-4.3-macOKDec 13 2024

Exports:ACNEdoACNEdoACNE.AffymetrixCelSetdoACNE.defaultfitSnpNmffitSnpNmfArraygetAsteriskTags.NmfPlmgetAsteriskTags.NmfSnpPlmgetFitUnitFunction.NmfPlmgetProbeAffinityFile.NmfPlmmiqr.solveNmfPlmNmfSnpPlmplot.SnpNmfFitplotFreqBpseudoinverseremoveOutliersrobustHInitrobustWInitsnpArrayToMatrixsnpMatrixToArrayWHInit

Dependencies:aroma.affymetrixaroma.apdaroma.corearoma.lightbase64encBiocManagercodetoolsdigestDNAcopyfutureglobalslistenvMASSmatrixStatsparallellyPSCBSR.cacheR.devicesR.filesetsR.hugeR.methodsS3R.ooR.rspR.utilsRColorBrewer

Readme and manuals

Help Manual

Help pageTopics
Package ACNEACNE-package ACNE
(ACNE)doACNE doACNE.AffymetrixCelSet doACNE.default
The NmfPlm classNmfPlm
The NmfSnpPlm classNmfSnpPlm