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RTIGER: HMM-Based Model for Genotyping and Cross-Over Identification

Our method integrates information from all sequenced samples, thus avoiding loss of alleles due to low coverage. Moreover, it increases the statistical power to uncover sequencing or alignment errors <doi:10.1093/plphys/kiad191>.

Version: 2.1.0
Depends: R (≥ 3.6), GenomicRanges, GenomeInfoDb
Imports: methods, e1071, extraDistr, reshape2, ggplot2, TailRank, JuliaCall, IRanges, qpdf, grDevices, graphics, stats, utils
Suggests: knitr, rmarkdown, markdown, Gviz, rtracklayer
Published: 2023-03-29
DOI: 10.32614/CRAN.package.RTIGER
Author: Rafael Campos-Martin ORCID iD [cre], Sophia Schmickler [aut], Manish Goel [ctb], Korbinian Schneeberger [aut], Achim Tresch [aut]
Maintainer: Rafael Campos-Martin <rfael.mpi at gmail.com>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
Materials: README
CRAN checks: RTIGER results

Documentation:

Reference manual: RTIGER.pdf
Vignettes: tutorial_RTIGER

Downloads:

Package source: RTIGER_2.1.0.tar.gz
Windows binaries: r-devel: RTIGER_2.1.0.zip, r-release: RTIGER_2.1.0.zip, r-oldrel: RTIGER_2.1.0.zip
macOS binaries: r-release (arm64): RTIGER_2.1.0.tgz, r-oldrel (arm64): RTIGER_2.1.0.tgz, r-release (x86_64): RTIGER_2.1.0.tgz, r-oldrel (x86_64): RTIGER_2.1.0.tgz
Old sources: RTIGER archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=RTIGER to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.