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PyRosetta - General

Topic / Topic starter Repliessort descending Views Last post
Normal topic Calculate residue-residue pairwise energies
by pachecoj » Tue, 2013-07-23 04:51 		4
 6,937 by Sergey
Mon, 2014-04-21 06:48
Normal topic Approximating CHARMM energy by the rosetta scoring function
by ajasja » Fri, 2014-06-20 02:16 		4
 6,028 by ajasja
Thu, 2014-07-03 05:53
Normal topic Calling SnugDock from PyRosetta
by shruthi.murali » Wed, 2020-07-29 15:10 		4
 3,535 by antonkulaga
Thu, 2021-12-23 16:07
Normal topic Pypy not working, python works...
by MarkW » Thu, 2015-03-05 05:15 		4
 7,489 by MarkW
Mon, 2015-08-24 04:43
Normal topic Post-traslational modifications
by diegoms » Wed, 2023-06-21 01:22 		4
 1,388 by diegoms
Wed, 2023-08-02 01:18
Normal topic Error when trying to import 'get_secstruct'
by quantumnumber » Thu, 2019-04-11 03:50 		4
 5,456 by quantumnumber
Fri, 2019-05-10 02:25
Normal topic Add new atom
by eberhardt » Thu, 2013-03-14 02:01 		4
 7,288 by eberhardt
Mon, 2014-04-21 06:47
Normal topic Does Rosetta scoring function can distinguish good structure from bad one?
by Victor » Sun, 2013-06-16 21:11 		4
 4,854 by Victor
Mon, 2014-04-21 06:48
Normal topic Strange fold tree problem with classic and fast relax
by jadolfbr » Mon, 2011-03-21 11:58 		4
 5,451 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Quadratic Function for Distance Constraints?
by protos_heis » Mon, 2014-01-27 06:21 		4
 4,602 by protos_heis
Mon, 2014-04-21 06:48
Normal topic Go parallel
by assignfit » Tue, 2011-11-29 10:47 		4
 4,944 by smlewis
Mon, 2014-04-21 06:47
Normal topic Inconsistencies in full atom energy calculations
by dsim » Tue, 2014-07-29 06:02 		4
 4,881 by dsim
Mon, 2014-09-15 07:47
Normal topic Protein docking with PyRosetta Error!
by Apiwat » Sat, 2014-01-11 23:32 		4
 7,303 by shivarawat115
Mon, 2022-04-11 16:03
Normal topic How do you combine two .pdb protein structure files of the same protein?
by nasim.soltani58 » Sun, 2020-11-22 23:14 		4
 5,962 by nasim.soltani58
Tue, 2020-12-08 22:44
Normal topic cartesian delta delta G
by patcD » Wed, 2021-02-10 01:46 		4
 4,354 by arjan-hada
Sat, 2024-01-27 05:45
Normal topic pose_from_sequence with modified residue
by nawsad » Wed, 2014-06-25 02:59 		4
 5,380 by nawsad
Sun, 2014-07-13 00:49
Normal topic Which score4?
by oppopomoz » Tue, 2013-03-12 06:21 		4
 6,434 by smlewis
Mon, 2014-04-21 06:47
Normal topic How does Rosetta select atom pairs for Lennard Jones Potential calculations?
by bowang2013 » Thu, 2015-10-29 08:04 		4
 5,726 by smlewis
Tue, 2015-11-03 09:17
Normal topic Reducing PyRosetta memory usage
by ajasja » Fri, 2014-10-03 01:51 		4
 6,061 by Sergey
Fri, 2015-04-10 11:25
Normal topic pymover = PyMOL_Mover() hangs IPython?
by cossio » Fri, 2015-04-10 07:38 		4
 5,154 by cossio
Wed, 2015-04-15 12:31
Normal topic Large Memory usage in Windows r10 Build
by ajasja » Fri, 2014-08-22 09:09 		4
 7,567 by ajasja
Mon, 2014-09-22 09:51
Normal topic De novo loop modeling using pyrosetta
by bharat_46010 » Sun, 2011-01-16 17:38 		4
 5,977 by Sergey
Mon, 2014-04-21 06:47
Normal topic Problem about Pyrosetta installation win7
by sprinkle166 » Mon, 2017-09-04 20:15 		5
 5,238 by sprinkle166
Fri, 2017-09-08 12:57
Normal topic Errors when movers put in a function
by rfschleif » Sat, 2011-10-08 08:41 		5
 5,354 by msellers
Mon, 2014-04-21 06:47
Normal topic How to use SAXS energy score in PyRosetta
by Jie Hou » Mon, 2016-09-05 08:31 		5
 6,133 by rmoretti
Mon, 2016-11-14 13:21
Normal topic Output different favored solutions with PackRotamersMover design
by xfliu » Fri, 2012-07-13 06:23 		5
 6,264 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error in loop modeling protocol
by jai_INMAS » Fri, 2013-10-18 07:08 		5
 6,291 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic How to optimize the orientations of polar hydrogens in PyRosetta
by xfliu » Sat, 2012-04-28 16:33 		5
 6,145 by xfliu
Mon, 2014-04-21 06:47
Normal topic How to combine two chains
by seanle24245 » Tue, 2016-07-19 07:54 		5
 8,944 by seanle24245
Fri, 2016-07-22 06:53
Normal topic Argument error when running D120_Ligand_interface.py
by piladam » Wed, 2014-07-09 10:43 		5
 7,395 by rmoretti
Mon, 2014-07-21 11:15
Normal topic Decoy Clustering
by jadolfbr » Mon, 2010-02-01 22:50 		5
 6,106 by nawsad
Mon, 2014-04-21 06:47
Normal topic BackrubMover options
by AOK » Thu, 2012-05-24 05:06 		5
 5,691 by AOK
Mon, 2014-04-21 06:47
Normal topic Using pyrosetta to generate quaternary structure of protein
by nasim.soltani58 » Thu, 2020-11-19 17:35 		5
 3,652 by nasim.soltani58
Tue, 2020-12-08 22:45
Normal topic Individual residue repacking causes segmentation fault or "ERROR: seqpos >= 1 ERROR:: Exit from: src/core/conformation/Confo..."
by msellers » Wed, 2012-04-04 12:27 		5
 6,287 by smlewis
Mon, 2014-04-21 06:47
Normal topic I don't know what's the problem when load the fragment file
by john8611 » Mon, 2014-09-29 03:45 		5
 6,929 by rmoretti
Tue, 2014-09-30 13:16
Normal topic Help with pyRosetta python scripting for protein manipulation
by pepfolder » Thu, 2012-05-31 14:01 		5
 6,646 by pepfolder
Mon, 2014-04-21 06:47
Normal topic Alignment and RMSD
by ñ » Wed, 2013-11-27 12:43 		5
 10,953 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Residue.set_chi() does not update internal state?
by ajasja » Wed, 2014-09-24 09:19 		5
 7,406 by rmoretti
Mon, 2014-10-06 14:37
Normal topic New Python 3.7
by ac.research » Wed, 2018-08-15 07:00 		5
 5,557 by MNP1986
Mon, 2018-12-03 04:02
Normal topic Altering Score/EMapVector
by mmertens » Fri, 2012-01-27 09:33 		5
 5,333 by rmoretti
Mon, 2014-04-21 06:47
Normal topic RosettaHoles for PyRosetta - Void Detection/Scoring
by ac.research » Sat, 2017-07-01 11:28 		5
 5,259 by rmoretti
Thu, 2017-07-06 12:49
Normal topic Score of the protein without ligand
by eberhardt » Thu, 2013-03-21 07:29 		5
 6,535 by eberhardt
Mon, 2014-04-21 06:47
Normal topic Fold tree not correct for multi-chain partners
by msellers » Fri, 2010-12-10 05:35 		6
 7,270 by msellers
Mon, 2014-04-21 06:47
Normal topic Pyrosetta energy function
by somayyehzangooei » Mon, 2011-05-09 08:20 		6
 8,477 by smlewis
Mon, 2014-04-21 06:47
Normal topic mutate_residue doesn't mutate
by dsim » Wed, 2015-03-18 02:32 		6
 7,879 by rmoretti
Fri, 2016-04-29 09:48
Normal topic Error getting MinMover attributes
by assaff » Sun, 2012-03-25 10:54 		6
 6,435 by smlewis
Mon, 2014-04-21 06:47
Normal topic Parallel processing?
by mark.wilson » Mon, 2010-07-26 15:12 		6
 12,032 by msellers
Mon, 2014-04-21 06:47
Normal topic Creating rotamers, computing pairwise and total energies
by gerdos » Wed, 2017-04-12 02:57 		6
 6,138 by gerdos
Tue, 2017-04-18 10:15
Normal topic Initializing DockDesignParser in PyRosetta
by LiorZ » Mon, 2013-04-22 01:56 		6
 6,736 by LiorZ
Mon, 2014-04-21 06:47
Normal topic Muting output in pyrosetta
by SenyorDrew » Mon, 2017-08-14 08:13 		6
 7,189 by SenyorDrew
Tue, 2017-08-15 07:41
Normal topic Backbone didn't change in docking, why?
by SunH » Wed, 2010-06-02 10:07 		6
 6,567 by SunH
Mon, 2014-04-21 06:47
Normal topic option removal/KIC
by jadolfbr » Thu, 2012-02-02 16:35 		6
 6,033 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Segmentation fault when reading VMD PDB
by msellers » Mon, 2011-01-03 07:14 		6
 9,488 by smlewis
Mon, 2014-04-21 06:47
Normal topic PyMOL Update
by ac.research » Tue, 2018-04-10 22:07 		6
 5,407 by Sergey
Tue, 2018-05-15 11:20
Normal topic Unpredictible amino acid replacements
by Victor » Wed, 2012-05-09 09:21 		6
 6,368 by aloctavodia
Mon, 2014-04-21 06:47
Normal topic (1) Score pose, (2) move atom, (3) score pose
by msellers » Fri, 2011-07-15 11:04 		6
 6,436 by msellers
Mon, 2014-04-21 06:47
Normal topic Score Function with Constraints
by ac.research » Fri, 2017-07-28 06:41 		6
 7,828 by ac.research
Sat, 2017-12-09 02:15
Normal topic ∆G calculation script for protein and mutation of AA at each residue
by ara » Tue, 2011-10-25 13:57 		6
 8,613 by ara
Mon, 2014-04-21 06:47
Normal topic PyRosetta surface docking not working
by cgautier » Mon, 2015-03-16 05:45 		6
 8,350 by Sergey
Wed, 2015-03-18 11:22
Normal topic mutate_residue not working
by lanselibai » Mon, 2014-08-11 03:55 		7
 8,980 by lanselibai
Sun, 2014-08-17 07:30
Normal topic Question about gradient of energy function
by kyler » Tue, 2017-08-22 14:09 		7
 7,609 by rmoretti
Tue, 2017-09-05 10:05
Normal topic Error while converting mol2 to params using molfile_to_params.py
by ahmadkhalifa » Thu, 2018-06-14 10:30 		7
 7,697 by rmoretti
Thu, 2018-06-28 12:04
Normal topic How can I automate mutations with PyRosetta or other Rosetta software?
by archaeopteryx » Mon, 2023-07-03 19:35 		7
 2,143 by arjan-hada
Sat, 2024-01-27 05:48
Normal topic Fold Tutorial
by ac.research » Sat, 2017-06-03 19:39 		7
 9,019 by smlewis
Sat, 2017-06-10 15:15
Normal topic Creating FeatureReporters in PyRosetta
by LiorZ » Tue, 2016-08-23 23:50 		7
 6,749 by smlewis
Wed, 2016-08-24 14:23
Normal topic Rotamer information from pose
by AyushGoyal » Wed, 2014-01-15 14:37 		7
 9,515 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Fix corrupted Backbone
by ac.research » Mon, 2018-03-05 12:48 		7
 6,469 by ac.research
Tue, 2018-03-13 21:36
Normal topic PyRosetta AbInitio Folding protocol
by batch2k » Tue, 2009-12-15 11:09 		7
 12,581 by jadolfbr
Thu, 2015-02-05 10:32
Normal topic Energy scores of D-amino acids
by jshen2 » Mon, 2017-05-08 10:15 		7
 6,352 by jshen2
Sat, 2017-05-13 08:14
Normal topic How to calculate the pairwise rotamer-to-rotamer energy table between mutable residues allowed to change to all amino acid types
by AyushGoyal » Wed, 2014-01-22 16:24 		7
 9,312 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Customize Rosetta codes and make it accessible to PyRosetta
by xfliu » Thu, 2012-05-24 06:27 		7
 6,768 by Sergey
Mon, 2014-04-21 06:47
Normal topic Rotamer Libraries in Pyrosetta
by protos_heis » Fri, 2013-01-18 12:02 		8
 11,158 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Error when importing protocols.simple_filters
by xfliu » Tue, 2012-10-16 13:37 		8
 7,825 by xfliu
Mon, 2014-04-21 06:47
Normal topic Executing the mc simulation of polyalanine fragment
by bharat_46010 » Mon, 2011-01-17 19:18 		8
 8,560 by smlewis
Mon, 2014-04-21 06:47
Normal topic Concatenate Pose
by jadolfbr » Sat, 2011-02-19 21:12 		8
 9,578 by smlewis
Mon, 2014-04-21 06:47
Normal topic Relaxing experimental structure
by aloctavodia » Thu, 2016-09-29 03:46 		8
 8,707 by aloctavodia
Thu, 2016-10-06 03:29
Normal topic backrub mover
by sunlufinal » Sat, 2012-11-24 04:46 		8
 11,765 by jadolfbr
Tue, 2015-08-18 00:53
Normal topic How to set up external C++ folding server
by seanle24245 » Sat, 2016-06-11 10:54 		8
 8,534 by seanle24245
Sun, 2016-06-19 18:30
Normal topic Symmetric design with PyRosetta
by dsim » Thu, 2016-11-17 07:50 		9
 9,019 by dsim
Tue, 2016-11-22 08:11
Normal topic The Beta version of PyRosetta 2.0 is ready for download!
by Sergey » Mon, 2011-01-24 10:12 		9
 8,798 by drluca77
Mon, 2014-04-21 06:47
Normal topic PyRosetta FastDesign
by ac.research » Tue, 2017-07-04 10:23 		9
 10,740 by ac.research
Wed, 2017-07-05 16:59
Normal topic Fragment Picking in PyRosetta
by ac.research » Thu, 2017-08-31 04:48 		9
 10,540 by rmoretti
Tue, 2017-10-10 09:16
Normal topic problems with low-resolution loop refinemet (LoopMover_Perturb_CCD)
by aloctavodia » Thu, 2012-07-26 06:51 		9
 9,043 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Fragment Quality
by ac.research » Mon, 2017-07-10 10:23 		9
 7,862 by ac.research
Fri, 2017-07-14 12:55
Normal topic Send the output of PyRosetta to a PyMOLPyRosettaServer on a remote computer?
by lah435 » Mon, 2012-09-10 16:06 		10
 11,012 by ggyimesi
Mon, 2014-04-21 06:47
Normal topic newbie question re pose syntax
by Amy F » Mon, 2019-04-15 12:50 		10
 9,378 by jadolfbr
Wed, 2019-04-24 10:12
Normal topic cartesian space minimization
by bystrc » Fri, 2014-03-28 14:17 		10
 15,489 by rmoretti
Thu, 2016-02-18 14:22
Normal topic adding coordinate constraints
by jtmacd » Tue, 2011-04-12 04:51 		11
 12,534 by jtmacd
Mon, 2014-04-21 06:47
Normal topic non canonical aa mutations/force fields/pyrosetta
by Anouk » Wed, 2013-06-19 01:51 		12
 13,834 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic how to read a silent file ?
by Anonymous » Wed, 2012-06-27 09:34 		12
 12,393 by Anonymous
Mon, 2014-04-21 06:47
Normal topic An issue with GenericMonteCarloMover()
by ac.research » Wed, 2018-03-07 13:57 		13
 9,883 by ac.research
Fri, 2018-05-11 10:59
Normal topic ΔΔG Calculation of a Mutation with PyRosetta
by akaashvenkat » Fri, 2018-03-09 01:44 		13
 14,889 by matteoferla
Wed, 2022-01-12 01:20
Normal topic how can we calculate Rosetta score on some decoy set?
by mirzaie » Wed, 2013-06-19 08:43 		13
 14,666 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Minimization question
by rfschleif » Wed, 2011-05-25 06:59 		14
 13,867 by Sergey
Mon, 2014-04-21 06:47
Hot topic SequenceRelax on a loop
by jtmacd » Mon, 2011-04-11 07:53 		15
 14,235 by ñ
Mon, 2014-04-21 06:47
Hot topic Making mutations in PyRosetta?
by thorx020 » Thu, 2012-08-09 09:24 		15
 22,117 by ajasja
Mon, 2014-09-22 10:17
Hot topic HBondEnergy
by bharat_46010 » Wed, 2013-05-15 19:03 		15
 17,830 by rmoretti
Mon, 2014-04-21 06:47
Hot topic Creating a vector1 of AtomID objects
by msellers » Mon, 2011-07-18 06:24 		19
 18,111 by msellers
Mon, 2014-04-21 06:47
Hot topic Score Function weights
by thorx020 » Sun, 2012-08-12 13:59 		24
 39,310 by msun
Fri, 2015-07-10 11:03
Hot topic Energy Minimization
by bharat_46010 » Wed, 2013-07-31 20:45 		24
 32,128 by rmoretti
Mon, 2014-04-21 06:48