CCAFE
This is the development version of CCAFE; for the stable release version, see CCAFE.
Case Control Allele Frequency Estimation
Bioconductor version: Development (3.22)
Functions to reconstruct case and control AFs from summary statistics. One function uses OR, NCase, NControl, and SE(log(OR)). The second function uses OR, NCase, NControl, and AF for the whole sample.
Author: Hayley Wolff [cre, aut]
Maintainer: Hayley Wolff <hayley.wolff at cuanschutz.edu>
citation("CCAFE")):
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("CCAFE")
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("CCAFE")| CCAFE Extra Details | HTML | R Script |
| CCAFE Vignette | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ComparativeGenomics, Genetics, GenomeWideAssociation, Preprocessing, SNP, Software, WholeGenome |
| Version | 1.1.0 |
| In Bioconductor since | BioC 3.21 (R-4.5) (< 6 months) |
| License | GPL-3 |
| Depends | R (>= 4.4.0) |
| Imports | dplyr, VariantAnnotation |
| System Requirements | |
| URL | https://github.com/wolffha/CCAFE/ |
| Bug Reports | https://github.com/wolffha/CCAFE/issues |
See More
| Suggests | testthat (>= 3.0.0), rmarkdown, markdown, knitr, tidyverse, DescTools, cowplot, BiocStyle, GenomicRanges, SummarizedExperiment, S4Vectors, IRanges |
| 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 | CCAFE_1.1.0.tar.gz |
| Windows Binary (x86_64) | CCAFE_1.1.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/CCAFE |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CCAFE |
| Bioc Package Browser | https://code.bioconductor.org/browse/CCAFE/ |
| Package Short Url | https://bioconductor.org/packages/CCAFE/ |
| Package Downloads Report | Download Stats |