Index

A | C | F | G | H | I | L | M | N | P | T | V | W

A

allel (module)
allel.model (module)
allel.stats (module)
allele_count() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
allele_counts() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
allele_frequencies() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
allele_frequency() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
allele_number() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
allelism() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)

C

count_call() (allel.model.GenotypeArray method)
count_called() (allel.model.GenotypeArray method)
count_doubleton() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
count_het() (allel.model.GenotypeArray method)
count_hom() (allel.model.GenotypeArray method)
count_hom_alt() (allel.model.GenotypeArray method)
count_hom_ref() (allel.model.GenotypeArray method)
count_missing() (allel.model.GenotypeArray method)
count_non_segregating() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
count_non_variant() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
count_segregating() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
count_singleton() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
count_variant() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)

F

from_packed() (allel.model.GenotypeArray static method)
from_sparse() (allel.model.GenotypeArray static method)
(allel.model.HaplotypeArray static method)

G

GenotypeArray (class in allel.model)

H

haploidify_samples() (allel.model.GenotypeArray method)
HaplotypeArray (class in allel.model)
heterozygosity_expected() (allel.model.GenotypeArray method)
heterozygosity_observed() (allel.model.GenotypeArray method)

I

inbreeding_coefficient() (allel.model.GenotypeArray method)
intersect() (allel.model.LabelIndex method)
(allel.model.PositionIndex method)
intersect_range() (allel.model.PositionIndex method)
intersect_ranges() (allel.model.PositionIndex method)
is_call() (allel.model.GenotypeArray method)
is_called() (allel.model.GenotypeArray method)
is_doubleton() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
is_het() (allel.model.GenotypeArray method)
is_hom() (allel.model.GenotypeArray method)
is_hom_alt() (allel.model.GenotypeArray method)
is_hom_ref() (allel.model.GenotypeArray method)
is_missing() (allel.model.GenotypeArray method)
is_non_segregating() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
is_non_variant() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
is_segregating() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
is_singleton() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)
is_unique (allel.model.PositionIndex attribute)
is_variant() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)

L

LabelIndex (class in allel.model)
locate_intersection() (allel.model.LabelIndex method)
(allel.model.PositionIndex method)
locate_intersection_ranges() (allel.model.PositionIndex method)
locate_key() (allel.model.LabelIndex method)
(allel.model.PositionIndex method)
locate_keys() (allel.model.LabelIndex method)
(allel.model.PositionIndex method)
locate_range() (allel.model.PositionIndex method)
locate_ranges() (allel.model.PositionIndex method)

M

mean_pairwise_difference() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)

N

n_haplotypes (allel.model.HaplotypeArray attribute)
n_samples (allel.model.GenotypeArray attribute)
n_variants (allel.model.GenotypeArray attribute)
(allel.model.HaplotypeArray attribute)

P

ploidy (allel.model.GenotypeArray attribute)
PositionIndex (class in allel.model)

T

to_allele_counts() (allel.model.GenotypeArray method)
to_n_alt() (allel.model.GenotypeArray method)
to_packed() (allel.model.GenotypeArray method)
to_sparse() (allel.model.GenotypeArray method)
(allel.model.HaplotypeArray method)

V

view_genotypes() (allel.model.HaplotypeArray method)
view_haplotypes() (allel.model.GenotypeArray method)

W

windowed_mean_per_base() (in module allel.stats)
windowed_nnz() (in module allel.stats)
windowed_nnz_per_base() (in module allel.stats)
windowed_nucleotide_diversity() (in module allel.stats)
windowed_statistic() (in module allel.stats)