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:
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')) |
Bug tracker:https://github.com/henrikbengtsson/acne/issues
acghcopynumbervariantssnpmicroarrayonechanneltwochannelgenetics
Last updated 8 months agofrom:7f31698ad0 (on master). Checks:OK: 5 NOTE: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 14 2024 |
| R-4.5-win | NOTE | Oct 14 2024 |
| R-4.5-linux | NOTE | Oct 14 2024 |
| R-4.4-win | OK | Oct 14 2024 |
| R-4.4-mac | OK | Oct 14 2024 |
| R-4.3-win | OK | Oct 14 2024 |
| R-4.3-mac | OK | Oct 14 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 page | Topics |
|---|---|
| Package ACNE | ACNE-package ACNE |
| (ACNE) | doACNE doACNE.AffymetrixCelSet doACNE.default |
| The NmfPlm class | NmfPlm |
| The NmfSnpPlm class | NmfSnpPlm |
