Package Saf
source code
Parser for SAF (Simple Alignment Format).
This is a fairly liberal multiple sequence alignment format, where
record names may contain up to 14 characters and no blanks. Lines
beginging with a hash (#) are ignored.
SAF has been described as a simplified subset of MSF, dropping the
checksum and with more flexibility in terms of line length.
A current URL describing this file format is:
http://www.predictprotein.org/Dexa/optin_saf.html
This appears to replace the old URL of:
http://www.embl-heidelberg.de/predictprotein/Dexa/optin_safDes.html
|
Iterator
Iterator interface to move over a file of Saf entries one at a
time.
|
|
_Scanner
Start up Martel to do the scanning of the file.
|
|
_RecordConsumer
Create a Saf Record object from scanner generated information.
|
|
RecordParser
Parse Saf files into Record objects.
|
__warningregistry__
- Value:
{ ( ' Bio.Saf has been deprecated, due to problems with Martel and recent
versions of mxTextTools. If you want to continue to use this module (
or read this file format), please get touch to avoid permanent removal
of this module from Biopython. ' ,
<type 'exceptions.DeprecationWarning'>,
26) : 1}
|
|