Package: preseqR 4.0.0

Chao Deng

preseqR: Predicting Species Accumulation Curves

Originally as an R version of Preseq <doi:10.1038/nmeth.2375>, the package has extended its functionality to predict the r-species accumulation curve (r-SAC), which is the number of species represented at least r times as a function of the sampling effort. When r = 1, the curve is known as the species accumulation curve, or the library complexity curve in high-throughput genomic sequencing. The package includes both parametric and nonparametric methods, as described by Deng C, et al. (2018) <arxiv:1607.02804v3>.

Authors:Chao Deng, Timothy Daley and Andrew D. Smith

preseqR_4.0.0.tar.gz
preseqR_4.0.0.tar.gz(r-4.5-noble)preseqR_4.0.0.tar.gz(r-4.4-noble)
preseqR_4.0.0.tgz(r-4.4-emscripten)preseqR_4.0.0.tgz(r-4.3-emscripten)
preseqR.pdf |preseqR.html✨
preseqR/json (API)

# Install 'preseqR' in R:
install.packages('preseqR', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

4.35 score 1 stars 3 packages 123 scripts 491 downloads 4 mentions 20 exports 1 dependencies

Last updated 6 years agofrom:311a1e5602. Checks:OK: 2. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 23 2024
R-4.5-linuxOKNov 23 2024

Exports:bbc.rSACcs.rSACds.rSACds.rSAC.bootstrapfisher.alphafisher.rSACkmer.frac.curvekmer.frac.curve.bootstrappreseqR.interpolate.rSACpreseqR.nonreplace.samplingpreseqR.optimal.sequencingpreseqR.rSACpreseqR.rSAC.bootstrappreseqR.rSAC.sequencing.rmduppreseqR.sample.covpreseqR.sample.cov.bootstrappreseqR.simu.histpreseqR.ztnb.emztnb.rSACztp.rSAC

Dependencies:polynom