{"Package":"ctDNAtools","Title":"Analyze Circulating Tumor DNA Sequencing Data","Version":"0.4.0","Authors@R":"\nperson(given = \"Amjad\",\nfamily = \"Alkodsi\",\nrole = c(\"aut\", \"cre\"),\nemail = \"amjad.alkodsi@gmail.com\",\ncomment = c(ORCID = \"0000-0003-3528-4683\"))","Description":"Contains tools to analyze minimal residual disease and cell-free DNA fragmentation from aligned sequencing data.\nMore details on the methods can be found in:\nAmjad Alkodsi, Leo Meriranta, Annika Pasanen, Sirpa Lepp (2020) .","License":"MIT + file LICENSE","Depends":"R (>= 3.6.0),","Imports":"magrittr, dplyr (>= 0.8.3), tidyr (>= 1.0.0), purrr (>=\n0.3.2), Rsamtools (>= 2.0.0), assertthat (>= 0.2.1),\nGenomicRanges, IRanges, GenomeInfoDb, BiocGenerics, BSgenome,\nGenomicAlignments, rlang (>= 0.4.0), Biostrings, methods, furrr\n(>= 0.1.0), ellipsis (>= 0.3.0), VariantAnnotation (>= 1.30.1)","Suggests":"BSgenome.Hsapiens.UCSC.hg19, testthat (>= 2.1.0), ggplot2,\nknitr, rmarkdown, covr, pkgdown","Encoding":"UTF-8","LazyData":"true","RoxygenNote":"6.1.1","VignetteBuilder":"knitr","URL":"https://github.com/alkodsi/ctDNAtools","BugReports":"https://github.com/alkodsi/ctDNAtools/issues","NeedsCompilation":"no","Packaged":"2020-02-25 21:33:59 UTC; amjad","Author":"Amjad Alkodsi [aut, cre] ()","Maintainer":"Amjad Alkodsi ","Repository":"CRAN","Date/Publication":"2020-03-04 18:10:02 UTC","repoType":"cran","tarballUrl":"ftp://cran.r-project.org/pub/R/src/contrib/ctDNAtools_0.4.0.tar.gz","jsonAuthors":[{"name":"Amjad Alkodsi","email":"amjad.alkodsi@gmail.com","maintainer":true}],"readme":"\n# ctDNAtools

\n\n\n[![Travis build status](https://travis-ci.com/alkodsi/ctDNAtools.svg?branch=master)](https://travis-ci.com/alkodsi/ctDNAtools)\n[![Codecov test coverage](https://codecov.io/gh/alkodsi/ctDNAtools/branch/master/graph/badge.svg)](https://codecov.io/gh/alkodsi/ctDNAtools?branch=master)\n[![DOI:10.1101/2020.01.27.912790](https://zenodo.org/badge/DOI/10.1101/2020.01.27.912790.svg)](https://doi.org/10.1101/2020.01.27.912790)\n[![Lifecycle: stable](https://img.shields.io/badge/lifecycle-stable-brightgreen.svg)](https://www.tidyverse.org/lifecycle/#stable)\n\n\nThe ctDNAtools package provides functionalities to analyze circulating tumor DNA (ctDNA)/ cell-free DNA (cfDNA) sequencing data.\nThe tools cover analysis of ctDNA/cfDNA fragmentation and analysis of cancer minimal residual disease.\n\n## Package overview\n\n

\n\n## Installation\n\n\n``` r\n# From github\n\n# install.packages(\"devtools\")\ndevtools::install_github(\"alkodsi/ctDNAtools\")\n```\n\n## Getting started\n\nBrowse the vignette [here](https://alkodsi.github.io/ctDNAtools/articles/ctDNAtools.html)\n\n## Citation\n\nAlkodsi A, Meriranta L, Pasanen A, Leppä S (2020). “ctDNAtools: An R package to\nwork with sequencing data of circulating tumor DNA.” _bioRxiv_.","jobInfo":{"package":"ctDNAtools","version":"0.4.0","parsingStatus":"success","parserVersion":1,"parsedAt":"2020-03-04T19:29:47+0000"}}

Description

Usage

Arguments