learnMSA
User Guide:
Input/output and general control
Training
Initialize with existing MSA
Visualization
API Reference:
API Reference
learnMSA
Index
Index
A
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C
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F
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G
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I
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M
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N
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P
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R
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S
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V
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W
A
AlignedDataset (class in learnMSA.msa_hmm.SequenceDataset)
alignment_len (learnMSA.msa_hmm.SequenceDataset.AlignedDataset property)
alphabet (learnMSA.msa_hmm.SequenceDataset.SequenceDataset attribute)
C
close() (learnMSA.msa_hmm.SequenceDataset.SequenceDataset method)
column_map (learnMSA.msa_hmm.SequenceDataset.AlignedDataset property)
F
filepath (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
fmt (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
G
get_alphabet_no_gap() (learnMSA.msa_hmm.SequenceDataset.SequenceDataset method)
get_column_map() (learnMSA.msa_hmm.SequenceDataset.AlignedDataset method)
get_encoded_seq() (learnMSA.msa_hmm.SequenceDataset.SequenceDataset method)
get_header() (learnMSA.msa_hmm.SequenceDataset.SequenceDataset method)
get_record() (learnMSA.msa_hmm.SequenceDataset.SequenceDataset method)
get_standardized_seq() (learnMSA.msa_hmm.SequenceDataset.SequenceDataset method)
I
indexed (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
M
max_len (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
msa_matrix (learnMSA.msa_hmm.SequenceDataset.AlignedDataset property)
N
num_seq (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
P
parsing_ok (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
R
record_dict (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
S
seq_ids (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
seq_lens (learnMSA.msa_hmm.SequenceDataset.SequenceDataset property)
SequenceDataset (class in learnMSA.msa_hmm.SequenceDataset)
SP_score() (learnMSA.msa_hmm.SequenceDataset.AlignedDataset method)
V
validate_dataset() (learnMSA.msa_hmm.SequenceDataset.AlignedDataset method)
(learnMSA.msa_hmm.SequenceDataset.SequenceDataset method)
W
write() (learnMSA.msa_hmm.SequenceDataset.SequenceDataset method)