MMTSB
Tool Set Documentation

Difference between revisions of "Main Page"

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== Structure preparation ==
 
== Structure preparation ==
  
* <TT>[[convpdb.pl]]</TT>(conversion/manipulation of PDB files)
+
{|
* <TT>[[complete.pl]]</TT> (completion of missing atoms)
+
|-|* <TT>[[convpdb.pl]]</TT> || (conversion/manipulation of PDB files)
* <TT>[[mutate.pl]]</TT> (amino acid residue mutations)
+
|-|* <TT>[[complete.pl]]</TT> || (completion of missing atoms)
* <TT>[[mutateNA.pl]]</TT> (nucleotide mutations)
+
|-|* <TT>[[mutate.pl]]</TT>   || (amino acid residue mutations)
 +
|-|* <TT>[[mutateNA.pl]]</TT> || (nucleotide mutations)
 +
|}
  
 
== Structure analysis ==
 
== Structure analysis ==

Revision as of 02:12, 11 August 2006

Structure preparation

Structure analysis

centerOfMass.pl cluster.pl contact.pl countIntCont.pl dihed.pl lsqfit.pl mindist.pl qscore.pl rgyr.pl rms.pl vicinity.pl

All-Atom Modeling

enerAmber.pl enerCHARMM.pl analyzeCHARMM.pl equiCHARMM.pl genPSF.pl mdAmber.pl mdCHARMM.pl minAmber.pl minCHARMM.pl nmaCHARMM.pl pbCHARMM.pl pdb2traj.pl processDCD.pl scalarCHARMM.pl

SICHO Lattice Modeling

genchain.pl geninput.pl checkchain.pl genrestr.pl genseq.pl hlamc.pl latticeener.pl latticesim.pl rebuild.pl xtracttra.pl

Replica Exchange Sampling

aarex.pl aarexAmaber.pl latrex.pl gorex.pl hlamcrex.pl readArchive.pl rexanalysis.pl rexinfo.pl rexserver.pl writeArchive.pl



Ensemble Computing

bestcluster.pl calcprop.pl checkin.pl enscluster.pl enscut.pl enseval.pl ensfiles.pl enslatsim.pl ensmin.pl ensrun.pl getprop.pl showcluster.pl jobserver.pl setprop.pl


Structure Prediction

buildModel.pl psiblast.pl psipred.pl