# Partially Clonal Populations Analysis

## Documentation for package ‘RClone’ version 1.0.2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

RClone-package | RClone
agg_index | Aggregation of clones
agg_index_core | Aggregation of clones
autocorrelation | Spatial Autocorrelation
autocorrelation_core | Spatial Autocorrelation
clonal_index | Indices for clonal data
clonal_index_core | Indices for clonal data
clonal_sub | Clonal Subrange
clonal_sub_core | Clonal Subrange
convert_GC | File conversion into RClone files
coord_posidonia | Posidonia coordinates
corresp_loci | Listing unique alleles
edge_effect | Edge Effect
edge_effect_core | Edge Effect
export_genclone_arlequin | export data file to Adegenet, Genetix and Arlequin
export_genclone_genetix | export data file to Adegenet, Genetix and Arlequin
export_genclone_genind | export data file to Adegenet, Genetix and Arlequin
Fis | Fis
Fis_core | Fis
freq_finder | Allelic Frequencies
freq_RR | Allelic Frequencies
freq_RR_core | Allelic Frequencies
GenClone | Summary function of RClone package
genclone | Summary function of RClone package
GenClone_core | Summary function of RClone package
genclone_core | Summary function of RClone package
genet_dist | Genetic distance
genet_dist_core | Genetic distance
genet_dist_sim | Genetic distance
genet_dist_sim_core | Genetic distance
graph_autocorrelation | Spatial Autocorrelation
graph_genet_dist | Genetic distance
id_clonal | Aggregation of clones
id_clonal_MLL | Aggregation of clones
id_clonal_mod | Clonal Subrange
id_clonal_mod_MLL | Clonal Subrange
infile | Infile GenClone style file
kinship | Loiselle and Ritland kinship coefficients
kinship_Loiselle | Loiselle and Ritland kinship coefficients
kinship_Loiselle_core | Loiselle and Ritland kinship coefficients
kinship_Ritland | Loiselle and Ritland kinship coefficients
kinship_Ritland_core | Loiselle and Ritland kinship coefficients
list_all | Listing unique alleles
list_all_obj | Listing unique alleles
list_all_obj_core | Listing unique alleles
list_all_tab | Listing unique alleles
list_all_tab2 | Listing unique alleles
list_all_tab2_core | Listing unique alleles
list_all_tab_core | Listing unique alleles
MLG_list | Table of MLG (MultiLocus Genotypes)
MLG_list_core | Table of MLG (MultiLocus Genotypes)
MLG_tab | Table of MLG (MultiLocus Genotypes)
MLG_tab_core | Table of MLG (MultiLocus Genotypes)
MLL_generator | Clonal Lineage Generation
MLL_generator2 | Clonal Lineage Generation
MLL_generator2_core | Clonal Lineage Generation
MLL_generator_core | Clonal Lineage Generation
nearest_unit | Aggregation of clones
Pareto_index | Pareto index
Pareto_index_core | Pareto index
pgen | Probability of a Genotype
pgen_core | Probability of a Genotype
pgen_Fis | Probability of a Genotype
pgen_Fis_core | Probability of a Genotype
popsim | Posidonia
popsimgen | Summary function of RClone package
posidonia | Posidonia
psex | Probability of originating from distinct sexual events
psex_core | Probability of originating from distinct sexual events
psex_Fis | Probability of originating from distinct sexual events
psex_Fis_core | Probability of originating from distinct sexual events
RClone | RClone
RClone_quickmanual | RClone
red_MLL | Spatial Autocorrelation
red_MLL_mod | Spatial Autocorrelation
resvigncont | Results contained in vignette Quick Manual
resvigncont2 | Results contained in vignette Quick Manual
sample_loci | Sample Loci or Units
sample_loci_core | Sample Loci or Units
sample_LU | Sample Loci or Units
sample_units | Sample Loci or Units
sample_units_core | Sample Loci or Units
sort_all | Sorting alleles
transcript_GC | Transcript GenClone files
zostera | Zostera Dataset