Found the following significant warnings:
  Rd warning: MLG-accessors.Rd:110: missing link ‘genlight-class’
  Rd warning: aboot.Rd:25: missing link ‘genind’
  Rd warning: aboot.Rd:25: missing link ‘genpop’
  Rd warning: aboot.Rd:26: missing link ‘genlight-class’
  Rd warning: bitwise.dist.Rd:63: missing link ‘genlight-class’
  Rd warning: bitwise.dist.Rd:19: missing link ‘genlight-class’
  Rd warning: bitwise.dist.Rd:75: missing link ‘genlight-class’
  Rd warning: bitwise.dist.Rd:85: missing link ‘genind-class’
  Rd warning: bitwise.dist.Rd:126: missing link ‘genlight-class’
  Rd warning: bitwise.ia.Rd:10: missing link ‘genlight-class’
  Rd warning: bootgen-class.Rd:26: missing link ‘gen-class’
  Rd warning: bruvo.boot.Rd:22: missing link ‘genind’
  Rd warning: bruvo.boot.Rd:55: missing link ‘boot.phylo’
  Rd warning: bruvo.boot.Rd:121: missing link ‘nancycats’
  Rd warning: bruvo.boot.Rd:122: missing link ‘nj’
  Rd warning: bruvo.boot.Rd:122: missing link ‘boot.phylo’
  Rd warning: bruvo.boot.Rd:123: missing link ‘nodelabels’
  Rd warning: bruvo.boot.Rd:123: missing link ‘tab’
  Rd warning: bruvo.dist.Rd:20: missing link ‘genind’
  Rd warning: bruvo.dist.Rd:39: missing link ‘genind’
  Rd warning: bruvo.dist.Rd:41: missing link ‘genind’
  Rd warning: bruvo.msn.Rd:33: missing link ‘genind’
  Rd warning: bruvo.msn.Rd:215: missing link ‘nancycats’
  Rd warning: bruvomat-methods.Rd:18: missing link ‘genind-class’
  Rd warning: clonecorrect.Rd:11: missing link ‘genind-class’
  Rd warning: clonecorrect.Rd:29: missing link ‘genind-class’
  Rd warning: coercion-methods.Rd:26: missing link ‘genind-class’
  Rd warning: coercion-methods.Rd:29: missing link ‘genind-class’
  Rd warning: coercion-methods.Rd:77: missing link ‘splitStrata’
  Rd warning: diss.dist.Rd:10: missing link ‘genind’
  Rd warning: diversity_ci.Rd:22: missing link ‘genind’
  Rd warning: filter_stats.Rd:22: missing link ‘genind’
  Rd warning: filter_stats.Rd:23: missing link ‘genlight’
  Rd warning: fix_replen.Rd:10: missing link ‘genind’
  Rd warning: genclone-class.Rd:12: missing link ‘genind-class’
  Rd warning: genclone-class.Rd:13: missing link ‘genlight-class’
  Rd warning: genclone-class.Rd:21: missing link ‘genind-class’
  Rd warning: genclone-class.Rd:21: missing link ‘genlight-class’
  Rd warning: genclone-class.Rd:46: missing link ‘genind-class’
  Rd warning: genclone-class.Rd:47: missing link ‘genlight-class’
  Rd warning: genclone-class.Rd:73: missing link ‘genind-class’
  Rd warning: genclone-class.Rd:73: missing link ‘genlight-class’
  Rd warning: genclone-method.Rd:21: missing link ‘genind-class’
  Rd warning: genetic_distance.Rd:29: missing link ‘genind-class’
  Rd warning: genetic_distance.Rd:60: missing link ‘dist.genpop’
  Rd warning: genetic_distance.Rd:60: missing link ‘genind-class’
  Rd warning: genind2genalex.Rd:21: missing link ‘genind-class’
  Rd warning: genind2genalex.Rd:81: missing link ‘genind-class’
  Rd warning: genotype_curve.Rd:19: missing link ‘genind-class’
  Rd warning: ia.Rd:305: missing link ‘import2genind’
  Rd warning: info_table.Rd:22: missing link ‘genind-class’
  Rd warning: info_table.Rd:61: missing link ‘genind-class’
  Rd warning: informloci.Rd:29: missing link ‘genind-class’
  Rd warning: informloci.Rd:10: missing link ‘genind-class’
  Rd warning: is.clone.Rd:23: missing link ‘genind-class’
  Rd warning: is.clone.Rd:24: missing link ‘genlight-class’
  Rd warning: missingno.Rd:10: missing link ‘genind-class’
  Rd warning: missingno.Rd:37: missing link ‘tab’
  Rd warning: missingno.Rd:29: missing link ‘genind-class’
  Rd warning: mlg.Rd:90: missing link ‘ggplot’
  Rd warning: mlg.filter.Rd:41: missing link ‘genind-class’
  Rd warning: plot_poppr_msn.Rd:33: missing link ‘genind-class’
  Rd warning: plot_poppr_msn.Rd:34: missing link ‘genlight-class’
  Rd warning: poppr-package.Rd:19: missing link ‘genind-class’
  Rd warning: poppr-package.Rd:20: missing link ‘genlight-class’
  Rd warning: poppr.Rd:58: missing link ‘tab’
  Rd warning: poppr.Rd:165: missing link ‘last_plot’
  Rd warning: poppr.amova.Rd:30: missing link ‘genind-class’
  Rd warning: poppr.amova.Rd:30: missing link ‘genlight-class’
  Rd warning: poppr.amova.Rd:131: missing link ‘genind-class’
  Rd warning: poppr.amova.Rd:132: missing link ‘genlight-class’
  Rd warning: poppr.amova.Rd:138: missing link ‘genind-class’
  Rd warning: poppr.amova.Rd:139: missing link ‘genlight-class’
  Rd warning: poppr.amova.Rd:161: missing link ‘quasieuclid’
  Rd warning: poppr.amova.Rd:161: missing link ‘lingoes’
  Rd warning: poppr.amova.Rd:161: missing link ‘cailliez’
  Rd warning: poppr.msn.Rd:31: missing link ‘genind’
  Rd warning: poppr.msn.Rd:32: missing link ‘genlight’
  Rd warning: poppr.msn.Rd:199: missing link ‘nancycats’
  Rd warning: poppr.msn.Rd:200: missing link ‘nj’
  Rd warning: poppr.msn.Rd:200: missing link ‘nodelabels’
  Rd warning: poppr.msn.Rd:201: missing link ‘tab’
  Rd warning: popsub.Rd:17: missing link ‘genind-class’
  Rd warning: popsub.Rd:18: missing link ‘genlight-class’
  Rd warning: read.genalex.Rd:47: missing link ‘genind’
  Rd warning: read.genalex.Rd:24: missing link ‘other’
  Rd warning: read.genalex.Rd:29: missing link ‘genind-class’
  Rd warning: read.genalex.Rd:50: missing link ‘genind’
  Rd warning: read.genalex.Rd:42: missing link ‘genind-class’
  Rd warning: read.genalex.Rd:102: missing link ‘genind-class’
  Rd warning: recode_polyploids.Rd:34: missing link ‘genind-class’
  Rd warning: recode_polyploids.Rd:10: missing link ‘genind-class’
  Rd warning: recode_polyploids.Rd:11: missing link ‘genpop-class’
  Rd warning: recode_polyploids.Rd:23: missing link ‘genind-class’
  Rd warning: recode_polyploids.Rd:24: missing link ‘genpop-class’
  Rd warning: shufflepop.Rd:6: missing link ‘genind-class’
  Rd warning: shufflepop.Rd:22: missing link ‘genind-class’
  Rd warning: shufflepop.Rd:11: missing link ‘genind-class’
  Rd warning: shufflepop.Rd:17: missing link ‘genind-class’
  Rd warning: snpclone-coercion-methods.Rd:12: missing link ‘genlight-class’
  Rd warning: snpclone-coercion-methods.Rd:21: missing link ‘genlight-class’
  Rd warning: snpclone-method.Rd:22: missing link ‘genlight-class’
  Rd warning: test_replen.Rd:10: missing link ‘genind’
  Rd warning: upgma.Rd:28: missing link ‘as.phylo’
  Rd warning: win.ia.Rd:18: missing link ‘genlight-class’
  Rd warning: win.ia.Rd:107: missing link ‘genlight-class’
See ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/poppr.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-14 (Debian 14.2.0-17) 14.2.0’