API for uqrmaie1/admixtools
Inferring demographic history from genetic data

Global functions
add_generation Source code
admixtools Man page
afs_to_counts Man page
afs_to_f2 Man page
afs_to_f2_blocks Man page Source code
alert_danger Source code
alert_info Source code
alert_success Source code
alert_warning Source code
arr3d_to_mat Source code
arr3d_to_pairmat Source code
block_arr_mean Source code
block_arr_sum Source code
block_mat_mean Source code
block_mat_sum Source code
boo_list Man page Source code
boo_list_cons Source code
boot_dat_stats Source code
catfun Source code
compare_fits2 Man page
compare_fits3 Man page
compare_fits4 Man page
cpp_aftable_to_dstatden Source code
cpp_aftable_to_dstatnum Source code
cpp_aftable_to_dstatnum_old Source code
cpp_fill_pwts Source code
cpp_get_block_lengths Source code
cpp_get_pairindex Source code
cpp_get_weights_covariance Source code
cpp_is_polymorphic Source code
cpp_jack_vec_stats Source code
cpp_mats_to_f2_arr Source code
cpp_opt_A Source code
cpp_opt_B Source code
cpp_opt_edge_lengths Source code
cpp_optimweightsfun Source code
cpp_outer_array_minus Source code
cpp_outer_array_mul Source code
cpp_outer_array_plus Source code
cpp_packedancestrymap_ploidy Source code
cpp_packedancestrymap_to_afs Source code
cpp_plink_ploidy Source code
cpp_plink_to_afs Source code
cpp_qpadm_weights Source code
cpp_read_eigenstrat Source code
cpp_read_packedancestrymap Source code
cpp_read_plink Source code
cpp_read_plink_afs Source code
decomposed_tree_neighbors Man page
delete_admix Man page
delete_groups Man page
delete_leaf Man page
desimplify_graph Man page
diag_3d Source code
discard_from_aftable Source code
discard_from_geno Source code
discard_snps Source code
eigenstrat_to_afs Man page Source code
eigenstrat_to_plink Man page
est_to_boo Man page Source code
est_to_boo_dat Source code
est_to_loo Man page Source code
est_to_loo_dat Source code
est_to_loo_nafix Source code
evolve_topology Source code
example_anno Man page
example_f2_blocks Man page
example_graph Man page
example_igraph Man page
example_qpgraph_ref_results Man page
example_triples Man page
example_winner Man page
example_winners Man page
extract_afs Man page
extract_afs_simple Man page
extract_counts Man page
extract_f2 Man page
extract_f2_large Man page
extract_f2_subset Man page
extract_samples Man page
f2 Man page Source code
f2_f3 Source code
f2_f4 Source code
f2_from_geno Man page
f2_from_precomp Man page
f2blocks_to_f4blocks Source code
f2blocks_to_f4stats Source code
f3 Man page
f4 Man page
f4_from_f2 Man page
f4blockdat_from_geno Man page
f4blockdat_to_f4blocks Man page Source code
f4blocks_to_f4stats Source code
find_admixedges Man page
find_graphs Man page Source code
find_newedges Man page
find_normedges Man page
flipadmix_random Man page
fstat_get_popcombs Source code
generate_all_graphs Man page
generate_all_trees Man page
get_block_lengths Man page Source code
get_f2 Man page
get_leafnames Man page Source code
get_leaves Source code
get_leaves2 Source code
get_outpop Man page Source code
get_root Source code
get_rootname Man page Source code
get_weights_covariance Source code
gg_color_hue Source code
graph_addleaf Man page
graph_flipadmix Man page
graph_minusone Man page
graph_minusplus Man page
graph_plusone Man page
graph_splittrees Man page
graph_to_pwts Source code
graphmod_pavel Man page
group_samples Man page
indpairs_to_f2blocks Source code
insert_admix_igraph Man page
insert_edge Man page
insert_edges Man page
insert_leaf Man page
interleave Source code
is_valid Source code
isomorphism_classes Man page
isomorphism_classes2 Man page
jack_arr_stats Source code
jack_dat_stats Source code
jack_mat_stats Source code
jack_mat_stats2 Source code
jack_mat_stats_proper_na Source code
jack_pairarr_stats Source code
jack_vec_stats Source code
jack_vec_stats2 Source code
jack_vec_stats3 Source code
lazadm Man page
loo_list Man page Source code
loo_to_est Man page Source code
loo_to_est_dat Source code
make_bootfun Source code
make_chunks Source code
make_pseudohaploid Source code
make_resample_snps_fun Source code
mat_to_2rep1 Source code
mat_to_arr3d Source code
mat_to_rep21 Source code
mats_to_aparr Source code
mats_to_ctarr Source code
mats_to_f2arr Source code
mean_impute Source code
move_admixedge_once Man page
msprime_sim Man page
mutate_n Man page
namedList Source code
newick_to_edges Man page
node_counts Man page
node_signature Man page
numadmix Man page Source code
numadmixplacements Source code
numdags Source code
numtrees Source code
numtreesadmix Source code
numtreestop Source code
opt_A Source code
opt_B Source code
optimize_admixturegraph_single Source code
outer_array Source code
packedancestrymap_to_afs Man page Source code
packedancestrymap_to_plink Man page
parse_fstats Source code
parse_qp3pop_output Man page
parse_qpadm_output Man page
parse_qpdstat_output Man page
parse_qpf4ratio_output Man page
parse_qpgraph_graphfile Man page
parse_qpgraph_output Man page
permute_leaves Man page
plink_to_afs Man page
plot_comparison Man page Source code
plot_comparison_qpgraph Source code
plot_graph Man page
plot_graph_map Man page
plot_map Man page
plotly_comparison Man page Source code
plotly_graph Man page
power_set Source code
prodarray Source code
qp3pop Man page Source code
qp3pop_resample_inds Man page
qp3pop_resample_snps Man page
qp3pop_wrapper Man page Source code
qpadm Man page Source code
qpadm_dof Source code Source code Source code
qpadm_models Man page
qpadm_multi Man page
qpadm_p Man page
qpadm_resample_inds Man page
qpadm_resample_snps Man page
qpadm_rotate Man page
qpadm_weights Source code
qpadm_wrapper Man page Source code
qpdstat Man page Source code
qpdstat_resample_inds Man page
qpdstat_resample_snps Man page
qpdstat_wrapper Man page Source code
qpf4ratio Man page
qpf4ratio_wrapper Man page Source code
qpgraph Man page
qpgraph_precompute_f3 Man page
qpgraph_resample_inds Man page
qpgraph_resample_multi Man page
qpgraph_resample_snps Man page
qpgraph_resample_snps2 Man page
qpgraph_wrapper Man page Source code
qpgraph_wrapper2 Source code
qpsolve Source code
qpwave Man page Source code
qpwave_dof Source code Source code Source code Source code
qpwave_pairs Man page
qpwave_resample_inds Man page
qpwave_resample_snps Man page
random_admixturegraph Man page
random_newick Man page
read_eigenstrat Man page Source code
read_f2 Man page
read_packedancestrymap Man page Source code
read_plink Man page
resample_inds Man page
resample_snps Man page
run_admixtools Source code
run_shiny_admixtools Man page Source code
score_to_prob Source code
shortest_unique_prefixes Man page
simplify_graph Man page
split_mat Man page
spr_all Man page
spr_leaves Man page
summarize_graph Source code
summarize_triples Man page
swap_leaves Man page
test_cladality Man page
tree_neighbors Man page
tree_to_pwts Source code
unify_vertex_names Source code
unify_vertex_names_rec Source code
weighted_row_means Source code
write_dot Man page
write_f2 Man page
xmats_to_pairarrs Source code
yesno Source code
ztop Source code
uqrmaie1/admixtools documentation built on Sept. 22, 2020, 3:35 p.m.