Description
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>.
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| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (2 non-OK)
NOTE
r-devel-linux-x86_64-debian-clang
CRAN incoming feasibility
Maintainer: ‘Chao Deng <chaodeng@usc.edu>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Chao",
family = "Deng",
role = c("aut", "cre"),
email = "chaodeng@usc.edu"),
person(given = "Timothy",
family = "Daley",
role = "aut"),
person(given = c("Andrew", "D."),
family = "Smith",
role = "aut"))
as necessary.
Package CITATION file contains call(s) to old-style personList() or
as.personList(). Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry(). Please
use bibentry() instead.
The Description field contains
Deng C, et al. (2018) <arXiv:1607.02804v3>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Found the following \keyword or \concept entries
which likely give several
...[truncated]...
ile ‘preseqR.interpolate.rSAC.Rd’:
\keyword{ interpolation, r-SAC}
File ‘preseqR.optimal.sequencing.Rd’:
\keyword{WGS, high-throughput, benefit-cost ratio} [TRUNCATED]
File ‘preseqR.rSAC.Rd’:
\keyword{ estimator, r-SAC, RFA, ZTNB, best practi [TRUNCATED]
File ‘preseqR.rSAC.bootstrap.Rd’:
\keyword{ estimator, r-SAC, bootstrap, best practi [TRUNCATED]
File ‘preseqR.rSAC.sequencing.rmdup.Rd’:
\keyword{r-SAC, duplicates, WES, WGS, high-through [TRUNCATED]
File ‘preseqR.sample.cov.Rd’:
\keyword{ estimator, RFA, sample coverage}
File ‘preseqR.sample.cov.bootstrap.Rd’:
\keyword{ estimator, RFA, bootstrap, sample covera [TRUNCATED]
File ‘preseqR.simu.hist.Rd’:
\keyword{ simulation, sampling, mixture of Poisson [TRUNCATED]
File ‘preseqR.ztnb.em.Rd’:
\keyword{ negative binomial, EM}
File ‘ztnb.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, negative b [TRUNCATED]
File ‘ztp.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, Poisson}
NOTE
r-devel-linux-x86_64-debian-gcc
CRAN incoming feasibility
Maintainer: ‘Chao Deng <chaodeng@usc.edu>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Chao",
family = "Deng",
role = c("aut", "cre"),
email = "chaodeng@usc.edu"),
person(given = "Timothy",
family = "Daley",
role = "aut"),
person(given = c("Andrew", "D."),
family = "Smith",
role = "aut"))
as necessary.
Package CITATION file contains call(s) to old-style personList() or
as.personList(). Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry(). Please
use bibentry() instead.
The Description field contains
Deng C, et al. (2018) <arXiv:1607.02804v3>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Found the following \keyword or \concept entries
which likely give several
...[truncated]...
ile ‘preseqR.interpolate.rSAC.Rd’:
\keyword{ interpolation, r-SAC}
File ‘preseqR.optimal.sequencing.Rd’:
\keyword{WGS, high-throughput, benefit-cost ratio} [TRUNCATED]
File ‘preseqR.rSAC.Rd’:
\keyword{ estimator, r-SAC, RFA, ZTNB, best practi [TRUNCATED]
File ‘preseqR.rSAC.bootstrap.Rd’:
\keyword{ estimator, r-SAC, bootstrap, best practi [TRUNCATED]
File ‘preseqR.rSAC.sequencing.rmdup.Rd’:
\keyword{r-SAC, duplicates, WES, WGS, high-through [TRUNCATED]
File ‘preseqR.sample.cov.Rd’:
\keyword{ estimator, RFA, sample coverage}
File ‘preseqR.sample.cov.bootstrap.Rd’:
\keyword{ estimator, RFA, bootstrap, sample covera [TRUNCATED]
File ‘preseqR.simu.hist.Rd’:
\keyword{ simulation, sampling, mixture of Poisson [TRUNCATED]
File ‘preseqR.ztnb.em.Rd’:
\keyword{ negative binomial, EM}
File ‘ztnb.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, negative b [TRUNCATED]
File ‘ztp.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, Poisson}
Check History
NOTE 12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
NOTE
r-devel-linux-x86_64-debian-clang
CRAN incoming feasibility
Maintainer: ‘Chao Deng <chaodeng@usc.edu>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Chao",
family = "Deng",
role = c("aut", "cre"),
...[truncated]...
Poisson [TRUNCATED]
File ‘preseqR.ztnb.em.Rd’:
\keyword{ negative binomial, EM}
File ‘ztnb.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, negative b [TRUNCATED]
File ‘ztp.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, Poisson}
NOTE
r-devel-linux-x86_64-debian-gcc
CRAN incoming feasibility
Maintainer: ‘Chao Deng <chaodeng@usc.edu>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Chao",
family = "Deng",
role = c("aut", "cre"),
...[truncated]...
Poisson [TRUNCATED]
File ‘preseqR.ztnb.em.Rd’:
\keyword{ negative binomial, EM}
File ‘ztnb.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, negative b [TRUNCATED]
File ‘ztp.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, Poisson}
Dependency Network
Version History
new
4.0.0
Mar 10, 2026
new
1.0
Aug 23, 2014