genotypeeval
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
QA/QC of a gVCF or VCF file
Bioconductor version: Release (3.17)
Takes in a gVCF or VCF and reports metrics to assess quality of calls.
Author: Jennifer Tom [aut, cre]
Maintainer: Jennifer Tom <tom.jennifer at gene.com>
Citation (from within R, enter
citation("genotypeeval")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("genotypeeval")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | BatchEffect, DataImport, Genetics, SNP, Sequencing, Software, VariantAnnotation |
| Version | 1.31.1 |
| In Bioconductor since | BioC 3.2 (R-3.2) (8 years) |
| License | file LICENSE |
| Depends | R (>= 3.4.0), VariantAnnotation |
| Imports | ggplot2, rtracklayer, BiocGenerics, GenomicRanges, GenomeInfoDb, IRanges, methods, BiocParallel, graphics, stats |
| Linking To | |
| Suggests | rmarkdown, testthat, SNPlocs.Hsapiens.dbSNP141.GRCh38, TxDb.Hsapiens.UCSC.hg38.knownGene |
| System Requirements | |
| Enhances | |
| URL |
See More
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | genotypeeval_1.31.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/genotypeeval |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/genotypeeval |
| Package Short Url | https://bioconductor.org/packages/genotypeeval/ |
| Package Downloads Report | Download Stats |