Archive for the ‘BioPython’ Category
Friday, November 21st, 2008
We are pleased to announce the release of Biopython 1.49. There have been some significant changes since Biopython 1.48 was released a few months ago, which is why we initially released a beta for wider testing. Thank you to all those who tried this and reported the minor problems ...
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Friday, November 7th, 2008
We are pleased to announce a beta release of Biopython 1.49. There are been some significant changes since Biopython 1.48 was released two months ago, which is why we are initially releasing a beta for wider testing.
As previously announced, the big news is that Biopython now uses NumPy rather than ...
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Sunday, November 2nd, 2008
Many of you will be aware that Python 2.6 was released a month ago (October 1st, 2008). This supports a lot of new syntax and functionality, but also deprecates some old modules (e.g. the sets module).
While Biopython 1.48 does mostly work with Python 2.6, we've been testing with Python ...
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Monday, September 22nd, 2008
To date, Biopython releases have relied on the original numerical python library, Numeric (used in python with "import Numeric"). In the next release we will at last be moving to its successor, NumPy (used in python with "import numpy").
This transition is already under way in the Biopython source code repository. ...
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Tuesday, September 9th, 2008
We are pleased to announce the release of Biopython 1.48. Some new functionality has been added, a few bugs have been fixed, the documentation has been updated, plus several obsolete modules have been deprecated (or explicitly labelled as obsolete).
The following additional file formats are now supported in Bio.SeqIO and Bio.AlignIO:
reading ...
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Saturday, July 5th, 2008
We are pleased to announce the release of Biopython 1.47.
This release includes a new Bio.AlignIO module, updates to Bio.Blast, parsers for NCBI's Entrez E-Utilities, numerous other code improvements and fixes, and an extended and updated documentation. In particular if you use Biopython to access NCBI's E-Utilities, we encourage you to ...
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Saturday, March 22nd, 2008
We are pleased to announce the release of Biopython 1.45.
This release includes numerous code improvements and fixes, including in Bio.Seq, Bio.SeqIO, Bio.Entrez, Bio.PopGen, Bio.SwissProt, Bio.Cluster, Bio.SCOP, Bio.InterPro, Bio.GenBank, Bio.ExPASy, BioSQL, and the Biopython documentation. Too many to list them all here!
Source distributions and Windows installers are available from the Biopython ...
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Sunday, October 28th, 2007
We are pleased to announce the release of Biopython 1.44.
This release includes lots of code improvements and fixes in the Blast interface and parsers, sequence input/output, the SwissProt parser, the clustering routines, as well as a brand new module for population genetics. For reasons of compatibility, some radical changes were ...
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Saturday, March 17th, 2007
We are pleased to announce the release of Biopython 1.43.
This release includes a brand-new set of parsers in Bio.SeqIO by Peter Cock for reading biological sequence files in various formats, an updated Blast XML parser in Bio.Blast.NCBIXML, a new UniGene flat-file parser by Sean Davis, and numerous improvements and ...
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Sunday, July 16th, 2006
Dear biopythoneers,
We are pleased to announce the release of Biopython 1.42. This release includes a brand-new Genbank parser in Bio.GenBank by Peter Cock, numerous updates to Bio.Nexus by Frank Kauff and to Bio.Geo by Peter, lots of bug fixes by scores of contributors through BugZilla, and Bio.Cluster became object-oriented.
Source distributions ...
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