CRAN Package Check Results for Maintainer ‘Steve Mack <Steven.Mack at ucsf.edu>’

Last updated on 2024-12-31 09:49:48 CET.

Package	NOTE	OK
BIGDAWG	2	11
HLAtools		13
pould	10	3

Package BIGDAWG

Current CRAN status: NOTE: 2, OK: 11

Version: 3.0.3
Check: dependencies in R code
Result: NOTE Namespace in Imports field not imported from: ‘httr’ All declared Imports should be used. Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Package HLAtools

Current CRAN status: OK: 13

Package pould

Current CRAN status: NOTE: 10, OK: 3

Version: 1.0.1
Check: Rd files
Result: NOTE checkRd: (-1) LD.heat.map.Rd:5: Lost braces; missing escapes or markup? 5 | \title{Generates heat-maps for four linkage disequilibrium (LD) values ({D'}, {Wn}, {WLoc1/Loc2} and {WLoc2/Loc1}) generated for all pairs of phased and unphased two-locus haplotypes by LDWrap().} | ^ checkRd: (-1) LD.heat.map.Rd:5: Lost braces; missing escapes or markup? 5 | \title{Generates heat-maps for four linkage disequilibrium (LD) values ({D'}, {Wn}, {WLoc1/Loc2} and {WLoc2/Loc1}) generated for all pairs of phased and unphased two-locus haplotypes by LDWrap().} | ^ checkRd: (-1) LD.heat.map.Rd:5: Lost braces; missing escapes or markup? 5 | \title{Generates heat-maps for four linkage disequilibrium (LD) values ({D'}, {Wn}, {WLoc1/Loc2} and {WLoc2/Loc1}) generated for all pairs of phased and unphased two-locus haplotypes by LDWrap().} | ^ checkRd: (-1) LD.heat.map.Rd:5: Lost braces; missing escapes or markup? 5 | \title{Generates heat-maps for four linkage disequilibrium (LD) values ({D'}, {Wn}, {WLoc1/Loc2} and {WLoc2/Loc1}) generated for all pairs of phased and unphased two-locus haplotypes by LDWrap().} | ^ checkRd: (-1) LD.sign.test.Rd:27: Lost braces; missing escapes or markup? 27 | Applies binom.test() to pairs of {D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and number of haplotypes values in the *_LD_results.csv files generated by LDWrap(). | ^ checkRd: (-1) LD.sign.test.Rd:27: Lost braces; missing escapes or markup? 27 | Applies binom.test() to pairs of {D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and number of haplotypes values in the *_LD_results.csv files generated by LDWrap(). | ^ checkRd: (-1) LD.sign.test.Rd:27: Lost braces; missing escapes or markup? 27 | Applies binom.test() to pairs of {D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and number of haplotypes values in the *_LD_results.csv files generated by LDWrap(). | ^ checkRd: (-1) LD.sign.test.Rd:27: Lost braces; missing escapes or markup? 27 | Applies binom.test() to pairs of {D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and number of haplotypes values in the *_LD_results.csv files generated by LDWrap(). | ^ checkRd: (-1) LD.sign.test.Rd:24: Lost braces; missing escapes or markup? 24 | A data frame of five columns ({D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and N_Haplotypes) and four rows (#unphased > phased, #unphased = phased, #locus pairs and p-values). | ^ checkRd: (-1) LD.sign.test.Rd:24: Lost braces; missing escapes or markup? 24 | A data frame of five columns ({D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and N_Haplotypes) and four rows (#unphased > phased, #unphased = phased, #locus pairs and p-values). | ^ checkRd: (-1) LD.sign.test.Rd:24: Lost braces; missing escapes or markup? 24 | A data frame of five columns ({D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and N_Haplotypes) and four rows (#unphased > phased, #unphased = phased, #locus pairs and p-values). | ^ checkRd: (-1) LD.sign.test.Rd:24: Lost braces; missing escapes or markup? 24 | A data frame of five columns ({D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and N_Haplotypes) and four rows (#unphased > phased, #unphased = phased, #locus pairs and p-values). | ^ checkRd: (-1) cALD.Rd:33: Lost braces; missing escapes or markup? 33 | A vector of {D'}, {Wn}, {WLocus2/Locus1}, {WLocus1/Locus2} values, and the number of haplotypes evaluated | ^ checkRd: (-1) cALD.Rd:33: Lost braces; missing escapes or markup? 33 | A vector of {D'}, {Wn}, {WLocus2/Locus1}, {WLocus1/Locus2} values, and the number of haplotypes evaluated | ^ checkRd: (-1) cALD.Rd:33: Lost braces; missing escapes or markup? 33 | A vector of {D'}, {Wn}, {WLocus2/Locus1}, {WLocus1/Locus2} values, and the number of haplotypes evaluated | ^ checkRd: (-1) cALD.Rd:33: Lost braces; missing escapes or markup? 33 | A vector of {D'}, {Wn}, {WLocus2/Locus1}, {WLocus1/Locus2} values, and the number of haplotypes evaluated | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64