API for dartR.base
Analysing 'SNP' and 'Silicodart' Data - Basic Functions

Global functions
.onAttach	Source code
CritSam	Source code
CritSam_Chi	Source code
GenerateSamples	Source code
[,dartR,ANY,ANY,ANY-method	Man page
cbind.dartR	Man page Source code
gi2gl	Man page Source code
gl.He	Man page Source code
gl.Ho	Man page Source code
gl.add.indmetrics	Man page Source code
gl.alf	Man page Source code
gl.allele.freq	Man page Source code
gl.amova	Man page Source code
gl.check.verbosity	Man page Source code
gl.check.wd	Man page Source code
gl.colors	Man page Source code
gl.compliance.check	Man page Source code
gl.define.pop	Man page Source code
gl.diagnostics.hwe	Man page Source code
gl.dist.ind	Man page Source code
gl.dist.phylo	Man page Source code
gl.dist.pop	Man page Source code
gl.drop.ind	Man page Source code
gl.drop.loc	Man page Source code
gl.drop.pop	Man page Source code
gl.edit.recode.ind	Man page Source code
gl.edit.recode.pop	Man page Source code
gl.fdsim	Man page Source code
gl.filter.allna	Man page Source code
gl.filter.callrate	Man page Source code
gl.filter.excess.het	Man page Source code
gl.filter.factorloadings	Man page Source code
gl.filter.hamming	Man page Source code
gl.filter.heterozygosity	Man page Source code
gl.filter.hwe	Man page Source code
gl.filter.ld	Man page Source code
gl.filter.locmetric	Man page Source code
gl.filter.maf	Man page Source code
gl.filter.monomorphs	Man page Source code
gl.filter.overshoot	Man page Source code
gl.filter.pa	Man page Source code
gl.filter.rdepth	Man page Source code
gl.filter.reproducibility	Man page Source code
gl.filter.secondaries	Man page Source code
gl.filter.taglength	Man page Source code
gl.fixed.diff	Man page Source code
gl.fst.pop	Man page Source code
gl.hwe.pop	Man page Source code
gl.impute	Man page Source code
gl.join	Man page Source code
gl.keep.ind	Man page Source code
gl.keep.loc	Man page Source code
gl.keep.pop	Man page Source code
gl.load	Man page Source code
gl.mahal.assign	Man page Source code
gl.make.recode.ind	Man page Source code
gl.make.recode.pop	Man page Source code
gl.map.interactive	Man page Source code
gl.merge.pop	Man page Source code
gl.pcoa	Man page Source code
gl.pcoa.plot	Man page Source code
gl.plot.heatmap	Man page Source code
gl.print.history	Man page Source code
gl.prop.shared	Man page
gl.propShared	Man page Source code
gl.randomize.snps	Man page Source code Source code
gl.read.PLINK	Man page Source code
gl.read.csv	Man page Source code
gl.read.dart	Man page Source code
gl.read.fasta	Man page Source code
gl.read.silicodart	Man page Source code
gl.read.vcf	Man page Source code
gl.reassign.pop	Man page Source code
gl.recalc.metrics	Man page Source code
gl.recode.ind	Man page Source code
gl.recode.pop	Man page Source code
gl.rename.pop	Man page Source code
gl.report.allelerich	Man page Source code
gl.report.allna	Man page Source code
gl.report.bases	Man page Source code
gl.report.basics	Man page Source code
gl.report.callrate	Man page Source code
gl.report.diversity	Man page Source code
gl.report.excess.het	Man page Source code
gl.report.factorloadings	Man page Source code
gl.report.fstat	Man page Source code
gl.report.hamming	Man page Source code
gl.report.heterozygosity	Man page Source code
gl.report.hwe	Man page Source code
gl.report.ld	Man page Source code
gl.report.ld.map	Man page Source code
gl.report.locmetric	Man page Source code
gl.report.maf	Man page Source code
gl.report.monomorphs	Man page Source code
gl.report.overshoot	Man page Source code
gl.report.pa	Man page Source code
gl.report.polyploid_heterozygosity	Man page Source code
gl.report.rdepth	Man page Source code
gl.report.replicates	Man page Source code
gl.report.reproducibility	Man page Source code
gl.report.secondaries	Man page Source code
gl.report.shannon	Man page Source code
gl.report.taglength	Man page Source code
gl.sample	Man page Source code
gl.save	Man page Source code
gl.select.colors	Man page Source code
gl.select.shapes	Man page Source code
gl.set.verbosity	Man page Source code
gl.set.wd	Man page Source code
gl.sim.cross	Man page
gl.sim.crosses	Man page Source code
gl.sim.genotypes	Man page Source code
gl.smearplot	Man page Source code
gl.sort	Man page Source code
gl.subsample.ind	Man page Source code
gl.subsample.loc	Man page Source code
gl.subsample.loci	Man page Source code
gl.test.heterozygosity	Man page Source code
gl.tree.fitch	Man page Source code
gl.tree.nj	Man page Source code
gl.write.csv	Man page Source code
gl2bayesAss	Man page Source code
gl2bayescan	Man page Source code
gl2bpp	Man page Source code
gl2demerelate	Man page Source code
gl2eigenstrat	Man page Source code
gl2fasta	Man page Source code
gl2faststructure	Man page Source code
gl2gapit	Man page Source code
gl2gds	Man page Source code
gl2genalex	Man page Source code
gl2genepop	Man page
gl2geno	Man page Source code
gl2gi	Man page Source code
gl2hapmap	Source code
gl2hiphop	Man page Source code
gl2paup.parsimony	Man page Source code
gl2paup.svdquartets	Man page Source code
gl2phylip	Man page Source code
gl2plink	Man page Source code
gl2related	Man page Source code
gl2sa	Man page Source code
gl2snapper	Man page Source code
gl2structure	Man page Source code
gl2treemix	Man page Source code
gl2vcf	Man page Source code
het_rep	Source code
ind.count	Man page Source code Source code
matrix2gen	Man page Source code
merge_gl_fasta	Source code
pop.het	Source code
rbind.dartR	Man page Source code
s_alleles	Source code
sample_genotype	Source code
std.error	Source code Source code
theme_dartR	Man page Source code
utils.basic.stats	Man page Source code
utils.check.datatype	Man page Source code
utils.collapse.matrix	Man page Source code
utils.dart2genlight	Man page Source code
utils.dist.binary	Man page Source code
utils.dist.ind.snp	Man page Source code
utils.flag.start	Man page Source code
utils.hamming	Man page Source code
utils.het.pop	Man page Source code
utils.impute	Man page
utils.is.fixed	Man page Source code
utils.jackknife	Man page Source code
utils.n.var.invariant	Man page Source code
utils.pa.Chao	Source code
utils.plink.run	Man page Source code
utils.plot.save	Man page Source code
utils.read.dart	Man page Source code
utils.read.fasta	Man page Source code
utils.read.ped	Man page
utils.recalc.avgpic	Man page Source code
utils.recalc.callrate	Man page Source code
utils.recalc.freqhets	Man page Source code
utils.recalc.freqhomref	Man page Source code
utils.recalc.freqhomsnp	Man page Source code
utils.recalc.maf	Man page Source code
utils.reset.flags	Man page Source code
utils.subsample.pop	Source code
utils.transpose	Man page Source code
utils.vcfr2genlight.polyploid	Man page Source code
zzz	Man page