Pyrepseq
v1.4
API Reference
Pyrepseq
Index
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Index
A
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B
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C
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D
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F
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H
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I
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J
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K
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L
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M
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N
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O
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P
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R
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S
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T
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V
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W
A
align_seqs() (in module pyrepseq.plotting)
AlphaCdr3Levenshtein (class in pyrepseq.metric.tcr_metric)
AlphaCdr3Tcrdist (class in pyrepseq.metric.tcr_metric)
AlphaCdrLevenshtein (class in pyrepseq.metric.tcr_metric)
AlphaTcrdist (class in pyrepseq.metric.tcr_metric)
B
BetaCdr3Levenshtein (class in pyrepseq.metric.tcr_metric)
BetaCdr3Tcrdist (class in pyrepseq.metric.tcr_metric)
BetaCdrLevenshtein (class in pyrepseq.metric.tcr_metric)
BetaTcrdist (class in pyrepseq.metric.tcr_metric)
C
calc_cdist_matrix() (pyrepseq.metric.Metric method)
(pyrepseq.metric.tcr_metric.TcrMetric method)
calc_pdist_vector() (pyrepseq.metric.Metric method)
(pyrepseq.metric.tcr_metric.TcrMetric method)
calculate_neighbor_numbers() (in module pyrepseq.distance)
cdist() (in module pyrepseq.distance)
Cdr3Levenshtein (class in pyrepseq.metric.tcr_metric)
Cdr3Tcrdist (class in pyrepseq.metric.tcr_metric)
CdrLevenshtein (class in pyrepseq.metric.tcr_metric)
chao1() (in module pyrepseq.stats)
chao2() (in module pyrepseq.stats)
D
downsample() (in module pyrepseq.distance)
F
find_neighbor_pairs() (in module pyrepseq.distance)
find_neighbor_pairs_index() (in module pyrepseq.distance)
H
hamming_neighbors() (in module pyrepseq.distance)
hash_based() (in module pyrepseq.nn)
hierarchical_clustering() (in module pyrepseq.distance)
I
isdist1() (in module pyrepseq.distance)
isvalidaa() (in module pyrepseq.io)
isvalidcdr3() (in module pyrepseq.io)
J
jaccard_index() (in module pyrepseq.stats)
K
kdtree() (in module pyrepseq.nn)
L
label_axes() (in module pyrepseq.plotting)
labels_to_colors_hls() (in module pyrepseq.plotting)
labels_to_colors_tableau() (in module pyrepseq.plotting)
Levenshtein (class in pyrepseq.metric)
levenshtein_neighbors() (in module pyrepseq.distance)
load_pcDelta_background() (in module pyrepseq.distance)
M
Metric (class in pyrepseq.metric)
module
pyrepseq
pyrepseq.distance
pyrepseq.io
pyrepseq.nn
pyrepseq.plotting
pyrepseq.stats
multimerge() (in module pyrepseq.io)
N
name (pyrepseq.metric.Metric property)
nearest_neighbor() (in module pyrepseq.nn)
nearest_neighbor_tcrdist() (in module pyrepseq.nn)
next_nearest_neighbors() (in module pyrepseq.distance)
nndist_hamming() (in module pyrepseq.distance)
O
overlap() (in module pyrepseq.stats)
overlap_coefficient() (in module pyrepseq.stats)
P
pc() (in module pyrepseq.stats)
pc_conditional() (in module pyrepseq.stats)
pc_joint() (in module pyrepseq.stats)
pc_n() (in module pyrepseq.stats)
pcDelta() (in module pyrepseq.distance)
pcDelta_grouped() (in module pyrepseq.distance)
pcDelta_grouped_cross() (in module pyrepseq.distance)
pdist() (in module pyrepseq.distance)
powerlaw_mle_alpha() (in module pyrepseq.stats)
powerlaw_sample() (in module pyrepseq.stats)
pyrepseq
module
pyrepseq.distance
module
pyrepseq.io
module
pyrepseq.nn
module
pyrepseq.plotting
module
pyrepseq.stats
module
R
rankfrequency() (in module pyrepseq.plotting)
renyi2_entropy() (in module pyrepseq.stats)
S
seqlogos() (in module pyrepseq.plotting)
seqlogos_vj() (in module pyrepseq.plotting)
shannon_entropy() (in module pyrepseq.stats)
similarity_clustermap() (in module pyrepseq.plotting)
standardize_dataframe() (in module pyrepseq.io)
stdpc() (in module pyrepseq.stats)
stdpc_n() (in module pyrepseq.stats)
subsample() (in module pyrepseq.stats)
symspell() (in module pyrepseq.nn)
T
Tcrdist (class in pyrepseq.metric.tcr_metric)
TcrMetric (class in pyrepseq.metric.tcr_metric)
V
var_chao1() (in module pyrepseq.stats)
var_chao2() (in module pyrepseq.stats)
varpc_n() (in module pyrepseq.stats)
W
WeightedLevenshtein (class in pyrepseq.metric)
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