[EMBOSS] fasta single-line sequence format?

Niels Larsen niels at genomics.dk
Tue Aug 27 15:18:23 UTC 2013

Neils: Re: 'Most genome packages use it': can you specify?  Most genome
packages I know allow the flexibility to use standard line-wrapped FASTA
as well, so coding an indexing scheme for a non-standard FASTA alone
seems… tricky.  Unless you intend on allowing both, and 'unwrapped' is
just for optimization.
C Feilds: Yes, read both but write unwrapped (by default) so that steps
a workflow can use the faster unwrapped format. Read routines that
the file by looking at the first record and derive the format, are much
than when reading/writing wrapped. And less work for the user/caller. 

Niels L

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