Last updated on 2025-12-05 21:49:52 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1 | 1.84 | 26.39 | 28.23 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 0.1 | 1.40 | 17.96 | 19.36 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.1 | 39.16 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1 | 37.17 | OK | |||
| r-devel-windows-x86_64 | 0.1 | 4.00 | 44.00 | 48.00 | OK | |
| r-patched-linux-x86_64 | 0.1 | 1.69 | 22.37 | 24.06 | OK | |
| r-release-linux-x86_64 | 0.1 | 1.75 | 23.36 | 25.11 | OK | |
| r-release-macos-arm64 | 0.1 | OK | ||||
| r-release-macos-x86_64 | 0.1 | 2.00 | 25.00 | 27.00 | OK | |
| r-release-windows-x86_64 | 0.1 | 4.00 | 44.00 | 48.00 | OK | |
| r-oldrel-macos-arm64 | 0.1 | OK | ||||
| r-oldrel-macos-x86_64 | 0.1 | 2.00 | 20.00 | 22.00 | OK | |
| r-oldrel-windows-x86_64 | 0.1 | 4.00 | 94.00 | 98.00 | OK |
Version: 0.1
Check: CRAN incoming feasibility
Result: NOTE
Maintainer: ‘Richard M. Single <rsingle@uvm.edu>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: person(given = c("Richard", "M."),
family = "Single",
role = c("aut", "cre"),
email = "rsingle@uvm.edu")
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.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 0.1
Check: examples
Result: ERROR
Running examples in ‘asymLD-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: compute.ALD
> ### Title: Compute ALD.
> ### Aliases: compute.ALD
>
> ### ** Examples
>
> library(asymLD)
>
> # An example using haplotype frequencies from Wilson(2010)
> data(hla.freqs)
> hla.a_b <- hla.freqs[hla.freqs$locus1=="A" & hla.freqs$locus2=="B",]
> compute.ALD(hla.a_b)
ALD.x.y is asymmetric LD for locus x conditioned on locus y
locus1 locus2 F.1 F.1.2 F.2 F.2.1 ALD.1.2 ALD.2.1
1 A B 0.1021811 0.340332 0.04876543 0.1903394 0.5150291 0.3857872
> hla.freqs$locus <- paste(hla.freqs$locus1, hla.freqs$locus2, sep="-")
> compute.ALD(hla.freqs[hla.freqs$locus=="C-B",])
ALD.x.y is asymmetric LD for locus x conditioned on locus y
locus1 locus2 F.1 F.1.2 F.2 F.2.1 ALD.1.2 ALD.2.1
1 C B 0.08637241 0.7350216 0.05040254 0.4520268 0.8425979 0.6503396
> # Note: additonal columns on the input dataframe (e.g., "locus" above) are allowed, but
> # ignored by the function.
>
> # An example using genotype data from the haplo.stats package
> require(haplo.stats)
Loading required package: haplo.stats
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called ‘haplo.stats’
> data(hla.demo)
Warning in data(hla.demo) : data set ‘hla.demo’ not found
> geno <- hla.demo[,5:8] #DPB-DPA
Error: object 'hla.demo' not found
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc