Version history and availability of PIPSA
(Protein Interaction Property Similarity Analysis)
The current version of PIPSA (Protein Interaction Property Similarity
Analysis) may be downloaded from
this page
Versions:
Version 1.0 was
developed
at EMBL, Heidelberg, Germany.
Version 2.0 and
3.0 was
developed
at EML Research gGmbH, Heidelberg, Germany.
Changes in the
version
2.0 are:
The programs rewritten to
make
the parameter
usage more transparent - previous parameter input from the files is
changed
to the input via command line;
Fixed subdirectory hierarchy
is
replaced
via user-defined, e.g. calculations can be done in any chosen directory;
Only an upper part of the
similarity
matrix is calculated, thus the computations for a set of n protens are
done not for n*n but n*(n+1)/2 pairs;
Enabled a possibility to add
extra
proteins to already processed set of proteins;
Added phylogenic tree
analysis;
Added APBS electrostatic
potential based analysis;
Added several auxiliary
programs.
Changes in the
version 3.0 are:
Added the program to calculate
similarity indices in spherical regions;
Changed output that has now the values of average potential
differences as well as the average potential values in the comparison
region;
Added the program to correlate
and predict kinetic constants, and added an application example for
this program;
Added a script to remove a
protein from a set of compared proteins;
Added modified version to run
the calculations in parallel;
Changes in
documentation.
Changes in the
version 3.1 and 3.2 are:
Added support for cylindrical volumes for comparison
Fall back to default, when sphere file is empty
Availability:
The current version of PIPSA (Protein Interaction Property Similarity
Analysis) may be downloaded from
this page