pyhmmer
0.1.4
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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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E
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F
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G
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H
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I
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K
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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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U
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W
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Z
A
accession (pyhmmer.easel.Sequence attribute)
(pyhmmer.plan7.HMM attribute)
add_file() (pyhmmer.easel.SSIWriter method)
Alignment (class in pyhmmer.plan7)
AllocationError
Alphabet (class in pyhmmer.easel)
alphabet (pyhmmer.easel.DigitalMSA attribute)
(pyhmmer.easel.DigitalSequence attribute)
amino() (pyhmmer.easel.Alphabet method)
B
Background (class in pyhmmer.plan7)
Bitfield (class in pyhmmer.easel)
C
checksum() (pyhmmer.easel.MSA method)
(pyhmmer.easel.Sequence method)
clear() (pyhmmer.easel.Sequence method)
(pyhmmer.plan7.Profile method)
(pyhmmer.plan7.TopHits method)
close() (pyhmmer.plan7.HMMFile method)
configure() (pyhmmer.plan7.Profile method)
copy() (pyhmmer.easel.DigitalMSA method)
(pyhmmer.easel.DigitalSequence method)
(pyhmmer.easel.TextMSA method)
(pyhmmer.easel.TextSequence method)
count() (pyhmmer.easel.Bitfield method)
D
data_offset() (pyhmmer.easel.SSIReader.Entry property)
description (pyhmmer.easel.Sequence attribute)
(pyhmmer.plan7.HMM attribute)
DigitalMSA (class in pyhmmer.easel)
DigitalSequence (class in pyhmmer.easel)
digitize() (pyhmmer.easel.TextMSA method)
(pyhmmer.easel.TextSequence method)
dna() (pyhmmer.easel.Alphabet method)
Domain (class in pyhmmer.plan7)
Domains (class in pyhmmer.plan7)
E
EaselError
F
fd() (pyhmmer.easel.SSIReader.Entry property)
format() (pyhmmer.easel.SSIReader.FileInfo property)
G
guess_alphabet() (pyhmmer.easel.SequenceFile method)
H
Hit (class in pyhmmer.plan7)
HMM (class in pyhmmer.plan7)
HMMFile (class in pyhmmer.plan7)
I
is_local() (pyhmmer.plan7.OptimizedProfile method)
(pyhmmer.plan7.Profile method)
is_multihit() (pyhmmer.plan7.Profile method)
K
K (pyhmmer.easel.Alphabet attribute)
KeyHash (class in pyhmmer.easel)
Kp (pyhmmer.easel.Alphabet attribute)
M
M (pyhmmer.plan7.HMM attribute)
module
pyhmmer
pyhmmer.easel
pyhmmer.errors
pyhmmer.plan7
MSA (class in pyhmmer.easel)
N
name (pyhmmer.easel.Sequence attribute)
(pyhmmer.plan7.HMM attribute)
name() (pyhmmer.easel.SSIReader.FileInfo property)
O
optimized() (pyhmmer.plan7.Profile method)
OptimizedProfile (class in pyhmmer.plan7)
P
Pipeline (class in pyhmmer.plan7)
pre_score (pyhmmer.plan7.Hit attribute)
Profile (class in pyhmmer.plan7)
pyhmmer
module
pyhmmer.easel
module
pyhmmer.errors
module
pyhmmer.plan7
module
R
read() (pyhmmer.easel.SequenceFile method)
readinto() (pyhmmer.easel.SequenceFile method)
record_length() (pyhmmer.easel.SSIReader.Entry property)
record_offset() (pyhmmer.easel.SSIReader.Entry property)
rna() (pyhmmer.easel.Alphabet method)
S
score (pyhmmer.plan7.Domain attribute)
(pyhmmer.plan7.Hit attribute)
search() (pyhmmer.plan7.Pipeline method)
Sequence (class in pyhmmer.easel)
sequence (pyhmmer.easel.DigitalSequence attribute)
(pyhmmer.easel.TextSequence attribute)
SequenceFile (class in pyhmmer.easel)
set_digital() (pyhmmer.easel.SequenceFile method)
source (pyhmmer.easel.Sequence attribute)
SSIReader (class in pyhmmer.easel)
SSIReader.Entry (class in pyhmmer.easel)
SSIReader.FileInfo (class in pyhmmer.easel)
SSIWriter (class in pyhmmer.easel)
symbols (pyhmmer.easel.Alphabet attribute)
T
textize() (pyhmmer.easel.DigitalSequence method)
TextMSA (class in pyhmmer.easel)
TextSequence (class in pyhmmer.easel)
toggle() (pyhmmer.easel.Bitfield method)
TopHits (class in pyhmmer.plan7)
U
UnexpectedError
W
write() (pyhmmer.plan7.HMM method)
(pyhmmer.plan7.OptimizedProfile method)
Z
zero() (pyhmmer.plan7.HMM method)