|
|
multiAlign
|
multiAlign (
chains,
cutoff,
matchType,
gapChar,
circular,
)
if circular:
raise ValueError, "Cannot handle circular permutations for multi-sequence alignments yet"
|
Exceptions
|
|
|
AttributeError, "No such EndPoint attribute: %s" % attr
UserError("Cannot generate alignment with" " %s %s because it is not superimposed" " on the other structures" %( seq.molecule.name, seq.name ) )
|
|
|
|
pairAlign
|
pairAlign (
chains,
cutoff,
gapChar,
circular,
showAlignment=True,
)
|
|
|
match2align
|
match2align (
chains,
cutoff,
matchType,
gapChar,
circular,
)
|
|
|
findPruneCrosslinks
|
findPruneCrosslinks (
allLinks,
pairings,
seq1,
seq2,
linkList,
links1,
links2,
tag="",
)
|
|