CRAN/E | karyotapR

karyotapR

DNA Copy Number Analysis for Genome-Wide Tapestri Panels

Installation

About

Analysis of DNA copy number in single cells using custom genome-wide targeted DNA sequencing panels for the Mission Bio Tapestri platform. Users can easily parse, manipulate, and visualize datasets produced from the automated 'Tapestri Pipeline', with support for normalization, clustering, and copy number calling. Functions are also available to deconvolute multiplexed samples by genotype and parsing barcoded reads from exogenous lentiviral constructs.

github.com/joeymays/karyotapR
joeymays.xyz/karyotapR/
Bug report File report

Key Metrics

Version 1.0.1
R ≥ 3.6
Published 2023-09-07 242 days ago
Needs compilation? no
License MIT
License File
CRAN checks karyotapR results

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Maintainer

Maintainer

Joseph Mays

josephcmays@gmail.com

Authors

Joseph Mays

aut / cre / cph

Material

README
NEWS
Reference manual
Package source

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-develnot available

x86_64

r-releasenot available

x86_64

r-oldrelnot available

x86_64

Depends

R ≥ 3.6
SingleCellExperiment

Imports

circlize
cli
ComplexHeatmap
dbscan
dplyr
fitdistrplus
GenomicRanges
ggplot2
gtools
IRanges
magrittr
methods
purrr
rhdf5
rlang
S4Vectors
stats
SummarizedExperiment
tibble
tidyr
umap
viridisLite

Suggests

Biostrings
knitr
rmarkdown
Rsamtools
testthat ≥ 3.0.0