Index

_ | A | B | C | D | F | G | H | I | K | L | M | N | O | P | Q | R | S | T

_

__init__() (modlamp.analysis.GlobalAnalysis method)
(modlamp.core.BaseDescriptor method)
(modlamp.core.BaseSequence method)
(modlamp.datasets.Bunch method)
(modlamp.descriptors.PeptideDescriptor method)
(modlamp.sequences.AMPngrams method)
(modlamp.sequences.MixedLibrary method)
(modlamp.wetlab.CD method)

A

aa_energies() (in module modlamp.core)
aa_formulas() (in module modlamp.core)
aa_weights() (in module modlamp.core)
aliphatic_index() (modlamp.descriptors.GlobalDescriptor method)
AmphipathicArc (class in modlamp.sequences)
AMPngrams (class in modlamp.sequences)
aromaticity() (modlamp.descriptors.GlobalDescriptor method)

B

BaseDescriptor (class in modlamp.core)
BaseSequence (class in modlamp.core)
boman_index() (modlamp.descriptors.GlobalDescriptor method)
Bunch (class in modlamp.datasets)

C

calc_aa_freq() (modlamp.analysis.GlobalAnalysis method)
calc_charge() (modlamp.analysis.GlobalAnalysis method)
calc_H() (modlamp.analysis.GlobalAnalysis method)
calc_len() (modlamp.analysis.GlobalAnalysis method)
calc_meanres_ellipticity() (modlamp.wetlab.CD method)
calc_molar_ellipticity() (modlamp.wetlab.CD method)
calc_uH() (modlamp.analysis.GlobalAnalysis method)
calculate_all() (modlamp.descriptors.GlobalDescriptor method)
calculate_arc() (modlamp.descriptors.PeptideDescriptor method)
calculate_autocorr() (modlamp.descriptors.PeptideDescriptor method)
calculate_charge() (modlamp.descriptors.GlobalDescriptor method)
calculate_crosscorr() (modlamp.descriptors.PeptideDescriptor method)
calculate_global() (modlamp.descriptors.PeptideDescriptor method)
calculate_moment() (modlamp.descriptors.PeptideDescriptor method)
calculate_MW() (modlamp.descriptors.GlobalDescriptor method)
calculate_profile() (modlamp.descriptors.PeptideDescriptor method)
CD (class in modlamp.wetlab)
Centrosymmetric (class in modlamp.sequences)
charge_density() (modlamp.descriptors.GlobalDescriptor method)
clean() (modlamp.core.BaseSequence method)
count_aa() (modlamp.core.BaseDescriptor method)
count_aas() (in module modlamp.core)

D

dichroweb() (modlamp.wetlab.CD method)

F

feature_scaling() (modlamp.core.BaseDescriptor method)
feature_shuffle() (modlamp.core.BaseDescriptor method)
filter_aa() (modlamp.core.BaseDescriptor method)
(modlamp.core.BaseSequence method)
filter_duplicates() (modlamp.core.BaseDescriptor method)
(modlamp.core.BaseSequence method)
filter_sequences() (modlamp.core.BaseDescriptor method)
filter_values() (modlamp.core.BaseDescriptor method)
formula() (modlamp.descriptors.GlobalDescriptor method)

G

generate_sequences() (modlamp.sequences.AmphipathicArc method)
(modlamp.sequences.AMPngrams method)
(modlamp.sequences.Centrosymmetric method)
(modlamp.sequences.Helices method)
(modlamp.sequences.HelicesACP method)
(modlamp.sequences.Hepahelices method)
(modlamp.sequences.Kinked method)
(modlamp.sequences.MixedLibrary method)
(modlamp.sequences.Oblique method)
(modlamp.sequences.Random method)
GlobalAnalysis (class in modlamp.analysis)
GlobalDescriptor (class in modlamp.descriptors)

H

helical_wheel() (in module modlamp.plot)
Helices (class in modlamp.sequences)
HelicesACP (class in modlamp.sequences)
helicity() (modlamp.wetlab.CD method)
Hepahelices (class in modlamp.sequences)
hydrophobic_ratio() (modlamp.descriptors.GlobalDescriptor method)

I

instability_index() (modlamp.descriptors.GlobalDescriptor method)
isoelectric_point() (modlamp.descriptors.GlobalDescriptor method)

K

keep_natural_aa() (modlamp.core.BaseDescriptor method)
(modlamp.core.BaseSequence method)
Kinked (class in modlamp.sequences)

L

length() (modlamp.descriptors.GlobalDescriptor method)
load_ACPvsRandom() (in module modlamp.datasets)
load_ACPvsTM() (in module modlamp.datasets)
load_AMPvsTM() (in module modlamp.datasets)
load_AMPvsUniProt() (in module modlamp.datasets)
load_custom() (in module modlamp.datasets)
load_descriptordata() (modlamp.core.BaseDescriptor method)
load_scale() (in module modlamp.core)
(modlamp.descriptors.PeptideDescriptor method)

M

make_H_gradient() (modlamp.sequences.AmphipathicArc method)
minmax_selection() (modlamp.core.BaseDescriptor method)
MixedLibrary (class in modlamp.sequences)
modlamp.analysis (module)
modlamp.core (module)
modlamp.database (module)
modlamp.datasets (module)
modlamp.descriptors (module)
modlamp.ml (module)
modlamp.plot (module)
modlamp.sequences (module)
modlamp.wetlab (module)
mutate_AA() (modlamp.core.BaseSequence method)

N

ngrams_apd() (in module modlamp.core)

O

Oblique (class in modlamp.sequences)

P

PeptideDescriptor (class in modlamp.descriptors)
plot() (modlamp.wetlab.CD method)
plot_2_features() (in module modlamp.plot)
plot_3_features() (in module modlamp.plot)
plot_aa_distr() (in module modlamp.plot)
plot_feature() (in module modlamp.plot)
plot_pde() (in module modlamp.plot)
plot_profile() (in module modlamp.plot)
plot_summary() (modlamp.analysis.GlobalAnalysis method)
plot_validation_curve() (in module modlamp.ml)
plot_violin() (in module modlamp.plot)
predict() (in module modlamp.ml)
prune_library() (modlamp.sequences.MixedLibrary method)

Q

query_apd() (in module modlamp.database)
query_camp() (in module modlamp.database)
query_database() (in module modlamp.database)

R

Random (class in modlamp.sequences)
random_selection() (modlamp.core.BaseDescriptor method)
read_fasta() (in module modlamp.core)
(modlamp.core.BaseDescriptor method)

S

save_descriptor() (modlamp.core.BaseDescriptor method)
save_fasta() (in module modlamp.core)
(modlamp.core.BaseDescriptor method)
(modlamp.core.BaseSequence method)
score_cv() (in module modlamp.ml)
score_testset() (in module modlamp.ml)
sequence_order_shuffle() (modlamp.core.BaseDescriptor method)

T

train_best_model() (in module modlamp.ml)