A C++ class for sequences ?
lindenb at biotec.jouy.inra.fr
Tue Oct 19 03:34:36 EST 1999
Thank you !
I found it at
> Keith Robison made such a version available at one time called molbio++,
> but the 1st few google hits were 404. I have a copy somewhere if you can't
> find it on an archive.
> molbio++ is a C++ library for molecular biosequence analysis. Major
> features include:
> classes and services for
> reading and writing sequence data in the following formats:
> Genbank Flatfile
> EMBL / SwissProt
> GCG / Wisconsin
> Fasta / Pearson
> NCBI Retrieve Server (read-only)
> limited parsing of fields and features in biosequence files
> storing amino acid or nucleic acid sequences
> iterating over a biosequence
> calculating and storing counts or frequencies of amino acids or
> device-independent graphics, via GCG's FIGURE program
> translating nucleotide sequences into proteins using the universal
> genetic code or
> modifications thereof.
> parsing BLAST output
> calculating pI and molecular weight of proteins
> amino acid hydropathy values of Kyte & Doolittle
> ftp from golgi.harvard.edu (188.8.131.52)
> in pub/CONTRIBUTIONS/molbio++
> From personal experience, I'd rec Jim Knight's seqio pkg (C not C++, but
> you could wrap it) for sequence handling and manipulation. Also
> net-available, altho gone from it's old primary UC Davis home. Again, I
> can send it to you if can't find it.
> Pierre Lindenbaum wrote:
> > I'm a looking for a C++ class handling biological sequences...
> > Is there a "standard" class ? Does it exist ? where ?
> > Thank you in advance.
> > Pierre LINDENBAUM
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