API for ThomasChln/snpclust
Single Nucleotide Polymorphism Unsupervised Clustering

Global functions
actg_to_numeric Source code
actg_tsv_to_gdata Source code
actual_scan_indices Source code
actual_snp_indices Source code
add_SNPs Source code
add_on_exit Source code
add_pca_sup_vars Source code
bed_targz_to_gds Source code
build_error_message Source code
build_gwastools Source code
catch_warnings Source code
check_arg Source code
check_availability Source code
check_chromosome Source code
check_fx_args Source code
check_genotype_data Source code
check_snp_gds Source code
compute_pca_coords_vars_sup Source code
compute_pca_obs_sup Source code
compute_pca_prcomp Source code
compute_var_coords_categorical Source code
compute_var_coords_numeric Source code
create_gds Source code
create_pca_axis_labels Source code
df_columns_exist Source code
df_rbind_all Source code
die_if Source code
die_unless Source code
draw_corr_circle Source code
draw_pca_vars Source code
estimate_haplotypes Source code
features_qc Source code
fetch_allele1 Source code
fetch_allele1.GdsGenotypeReader Source code
fetch_allele1.GenotypeData Source code
fetch_allele1.GenotypeDataSubset Source code
fetch_allele1.default Source code
fetch_allele2 Source code
fetch_allele2.GdsGenotypeReader Source code
fetch_allele2.GenotypeData Source code
fetch_allele2.GenotypeDataSubset Source code
fetch_allele2.default Source code
fetch_gds Source code
fetch_gds.GdsGenotypeReader Source code
fetch_gds.GenotypeData Source code
fetch_gds.GenotypeDataSubset Source code
fetch_gds.default Source code
fetch_genotypes Source code
fetch_genotypes_by_blocks Source code
fetch_genotypes_by_chunk_iterator Source code
fetch_genotypes_by_idx Source code
fetch_hgdp Source code
fetch_snpgds_alleles Source code
format_gds_for_BED2GDS Source code
format_mcmc Source code
gds_genotype_reader Source code
gds_read_index Source code
gds_serialize_object Source code
gds_to_bedtargz Source code Source code
gds_unserialize_object Source code
genotype_data_subset Source code Source code
get_features_pca Source code
get_haplos Source code
get_pca Source code
get_pca_explained_var Source code
get_pca_individuals Source code
get_pca_panels Man page Source code Source code
get_pca_vars Source code
get_polymorphic_cols Source code
get_scan_annot Source code
get_scan_annot.GenotypeData Source code
get_scan_annot.GenotypeDataSubset Source code
get_snp_annot Source code
get_snp_annot.GenotypeData Source code
get_snp_annot.GenotypeDataSubset Source code
ggplot_manhat Man page Source code
ggplot_pca Man page Source code
ggplot_selection Man page Source code Source code
grob_pca_panels Source code
haplo_features Source code Source code
haplo_mcmc Source code
haplo_weights Source code
hclust_classif Source code
ids_subset Source code
import_gds Source code
is_snp_first_dim Source code
is_snp_first_dim.GdsGenotypeReader Source code
is_snp_first_dim.GenotypeData Source code
is_snp_first_dim.MatrixGenotypeReader Source code
is_snp_first_dim.NcdfGenotypeReader Source code
is_snp_first_dim.default Source code
is_snp_first_dim.gds.class Source code
load_gds_as_genotype_data Source code
map_haplo_indiv Source code
max_peak Source code
merge_dfs Source code
merge_haplotypes Source code
mport_gds Source code
mpute_bed Source code
parse_arg_spec Source code
pca_fortify Source code
peak_selection Source code
peaks_with_gmm Source code
plink_merge Source code
plot_pca_pairs Man page Source code
quantile_chromosome_maxs Source code
rbind_qc Source code
read_snp_gds_alleles Source code
reduce_hgdp Source code
reorder_pca Source code
request_snpgds_file Source code
s_block Source code
sample_impute Source code
save_genotype_data_as_gds Source code
save_genotype_data_as_plink Source code
save_hgdp_as_gds Man page Source code
scale_pca_vars Source code
separate_peaks Source code
separate_peaks_by_pos Source code
setup_temp_dir Source code
snp_gds_open Source code
snpclust Man page Source code
snpclust-package Man page
snpclust_features Source code
snpclust_qc_pca Source code
snprelate_ld_select Source code
snprelate_pca Source code
snprelate_qc Source code
snps_hla Source code
split_sorted_ints_by_blocks Source code
system2 Source code
tagsnp Source code
transitive_tagsnp Source code Source code
txt_scans_to_df Source code
txt_snps_to_df Source code
untar_bed Source code
untar_bed_targz Source code
untar_impute_bed Source code
write_genotypes_to_gds Source code
write_snp_gds Source code
ThomasChln/snpclust documentation built on July 1, 2017, 6:34 p.m.