frenchFISH
This is the development version of frenchFISH; for the stable release version, see frenchFISH.
Poisson Models for Quantifying DNA Copy-number from FISH Images of Tissue Sections
Bioconductor version: Development (3.21)
FrenchFISH comprises a nuclear volume correction method coupled with two types of Poisson models: either a Poisson model for improved manual spot counting without the need for control probes; or a homogenous Poisson Point Process model for automated spot counting.
Author: Adam Berman, Geoff Macintyre
Maintainer: Adam Berman <agb61 at cam.ac.uk>
citation("frenchFISH")
):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("frenchFISH")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("frenchFISH")
Correcting FISH probe counts with frenchFISH | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | BiomedicalInformatics, CellBiology, Genetics, HiddenMarkovModel, Preprocessing, Software |
Version | 1.19.0 |
In Bioconductor since | BioC 3.11 (R-4.0) (4.5 years) |
License | Artistic-2.0 |
Depends | |
Imports | utils, MCMCpack, NHPoisson |
System Requirements | |
URL |
See More
Suggests | knitr, rmarkdown, testthat |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | frenchFISH_1.19.0.tar.gz |
Windows Binary (x86_64) | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/frenchFISH |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/frenchFISH |
Bioc Package Browser | https://code.bioconductor.org/browse/frenchFISH/ |
Package Short Url | https://bioconductor.org/packages/frenchFISH/ |
Package Downloads Report | Download Stats |