Uniquorn
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see Uniquorn.
Identification of cancer cell lines based on their weighted mutational or variational fingerprint
Bioconductor version: 3.6
Identifies cancer cell lines with their small variant fingerprint. Cancer cell line misidentification and cross-contamination reprents a significant challenge for cancer researchers. The identification is vital and in the frame of this package based on the locations or loci of somatic and germline mutations or variations. The input format is vcf and the files have to contain a single cancer cell line sample. The implemented method is optimized for the Next-generation whole exome and whole genome DNA-sequencing technology. RNA-seq data is very likely to work as well but hasn't been rigiously tested yet. Panel-seq will require manual adjustment of thresholds.
Author: Raik Otto
Maintainer: 'Raik Otto' <raik.otto at hu-berlin.de>
citation("Uniquorn")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Uniquorn")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | ExomeSeq, Software, StatisticalMethod, WholeGenome |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.3 (R-3.3) (8 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.4) |
| Imports | DBI, stringr, RSQLite, R.utils, WriteXLS, stats, BiocParallel |
| System Requirements | |
| URL |
See More
| Suggests | testthat, knitr, rmarkdown, BiocGenerics, RUnit |
| 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 | Uniquorn_1.6.0.tar.gz |
| Windows Binary | Uniquorn_1.6.0.zip |
| Mac OS X 10.11 (El Capitan) | Uniquorn_1.6.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Uniquorn |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Uniquorn |
| Package Short Url | https://bioconductor.org/packages/Uniquorn/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |