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Changes in 0.3.1:
================
* Available as two distributions
0.3.1s - for use with current stable (0.7.*) release of bioperl
0.3.1d - for use with development (currently 1.0.alpha) release
of bioperl; produced using patches kindly provided by
Jason Stajich
* Added POD documentation for
* Iterator method in TFBS::MatrixSet,
TFBS::SiteSet and TFBS::SitePairSet
* search_seq and search_aln methods in TFBS::MatrixSet
* TFBS::Matrix::PWM : fixed bug in handling -seqstring parameter
passed to the search_seq method
* TFBS::Matrix::* : fixed bug in handling -matrixstring parameter
passed to the constructor
Changes in 0.3.0:
================
* All aggregate classes (TFBS::MatrixSet, TFBS::SiteSet
and TFBS::SitePairSet) have iterators with uniform interface.
* added search_aln method to TFBS::MatrixSet, making possible
phylogenetic footprinting scans with sets of matrices
* Removed absolute requirement for the GD.pm module: its import is
deferred until the first call of draw_logo method of TFBS::Matrix
subclasses. Package test suite now does not require it, either.
* Changes in Makefile.PL: it now very clearly notifies user about
missing prerequisute modules.
* Improved documentation: added README and CHANGES files, and data
model information for JASPAR2 database in TFBS::DB::JASPAR2 POD
* More example scripts included in the distribution (see below)
* Fixed quite a few bugs, mainly in TFBS::DB::FlatFileDir and aggregate
classes
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