TMalign : Computer algorithm for protein structure alignment using dynamic programming and TM-score rotation matrix ( http://zhang.bioinformatics.ku.edu/TM-align/ )
biopython : Biopython - Python modules for computational molecular biology ( http://www.biopython.org http://pypi.python.org/pypi/biopython )
biskit : This is a sample skeleton ebuild file ( HOMEPAGE="" )
ce : 3-D protein structure comparison and alignment using the Combinatorial Extension (CE) method ( http://cl.sdsc.edu/ )
cytoscape : A visualization platform for molecular interaction networks ( http://www.cytoscape.org/ )
foldx-bin : A force field for energy calculations in proteins ( http://foldx.crg.es/" elog "Download ${A} from ${HOMEPAGE} )
imagej : Image Processing and Analysis in Java ( http://rsb.info.nih.gov/ij/ )
mmult : MAtching Molecular Models Obtained from THeory ( http://ub.cbm.uam.es/software.php" einfo "${HOMEPAGE} )
probalign : Probalign uses partition function posterior probability estimates to compute maximum expected accuracy multiple sequence alignments ( http://www.cs.njit.edu/usman/probalign/ )
sap : Pairwise protein structure alignment via double dynamic programming ( http://mathbio.nimr.mrc.ac.uk/wiki/SAP )
surfaceracer : Calculates exact accessible surface area, molecular surface area and average curvature of molecular surface for macromolecules ( http://apps.phar.umich.edu/tsodikovlab/index_files/Page756.htm )
Add an ebuild in portage :
The ebuild is now in the portage tree.
You can also use layman : emerge layman then layman -a dberkholz
For Paludis use this rsync : rsync://gentoo.zugaina.org/dberkholz-portage
If you have a problem : ycarus(-at-)zugaina.org