create_genome | Create a reference genome. |
create_haplotypes | Create haplotypes from a reference genome. |
evo_rates | Table of evolutionary rates. |
haplotypes | An R6 Class Representing Haploid Variants |
haps_functions | Organize higher-level information for creating haplotypes. |
haps_gtrees | Organize information to create haplotypes using gene trees |
haps_phylo | Organize information to create haplotypes using phylogenetic... |
haps_ssites | Organize information to create haplotypes using segregating... |
haps_theta | Organize information to create haplotypes using theta... |
haps_vcf | Organize information to create haplotypes using a VCF file |
illumina | Create and write Illumina reads to FASTQ file(s). |
indels | Insertions and deletions (indels) specification |
jackalope-package | jackalope: A Swift, Versatile Phylogenomic and... |
pacbio | Create and write PacBio reads to FASTQ file(s). |
read_fasta | Read a fasta file. |
ref_genome | R6 Class Representing a Reference Genome |
sub_models | Construct necessary information for substitution models. |
write_fasta | Write a 'ref_genome' or 'haplotypes' object to a FASTA file. |
write_vcf | Write haplotype info from a 'haplotypes' object to a VCF... |
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