Difference between revisions of "Pymol"
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| − | Pymol is a molecular visualisation program. It is '''NOT''' installed on all the clusters or workstations as we do not have a license. You can find in ''~csw34/bin'' on both clust and mek-quake and run it from there. The advantages Pymol has over VMD come from (a) the quality of the graphics you can produce as it has a built in ray-tracing facility (b) better handling of multiple structures and alignment. It does have downsides, namely that getting many of these options to work is not as easy as with VMD when you have a GUI to work with. The below tutorials will hopefully illuminate some of the most useful options! |
+ | Pymol is a molecular visualisation program. It is '''NOT''' installed on all the clusters or workstations as we do not have a license. You can find in ''~csw34/bin'' on both clust and mek-quake and run it from there. The advantages Pymol has over [[VMD]] come from (a) the quality of the graphics you can produce as it has a built in ray-tracing facility (b) better handling of multiple structures and alignment. It does have downsides, namely that getting many of these options to work is not as easy as with [[VMD]] when you have a GUI to work with. It also runs slower as it is more graphics intensive so if you are hoping to visualise a large molecule, [[VMD]] might be a better option. The below tutorials will hopefully illuminate some of the most useful options! |
== Tutorials == |
== Tutorials == |
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Revision as of 13:04, 29 April 2008
Pymol is a molecular visualisation program. It is NOT installed on all the clusters or workstations as we do not have a license. You can find in ~csw34/bin on both clust and mek-quake and run it from there. The advantages Pymol has over VMD come from (a) the quality of the graphics you can produce as it has a built in ray-tracing facility (b) better handling of multiple structures and alignment. It does have downsides, namely that getting many of these options to work is not as easy as with VMD when you have a GUI to work with. It also runs slower as it is more graphics intensive so if you are hoping to visualise a large molecule, VMD might be a better option. The below tutorials will hopefully illuminate some of the most useful options!