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PyRosetta - Scripts

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:21
0
10,942 by admin
Fri, 2015-09-04 16:15
Normal topic __init__.py - problem with runing the script
by peony » Thu, 2013-10-31 00:35
2
4,428 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ValueError: can only read V2000 format files
by egecav » Wed, 2021-01-20 13:49
1
1,414 by rmoretti
Wed, 2021-01-20 16:17
Normal topic using MonteCarlo to fold a random structure into a helical structure
by Run » Tue, 2013-10-22 05:48
5
8,678 by rmoretti
Mon, 2014-04-21 06:48
Normal topic unwanted Glycines after PackRotamersMover
by oppopomoz » Tue, 2014-03-04 10:08
2
19,936 by jadolfbr
Mon, 2014-03-10 11:16
Normal topic Ultrafast shape recognition
by Run » Tue, 2013-11-19 00:23
1
3,155 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Total score for individual residue
by ac.research » Tue, 2017-06-06 05:24
1
2,739 by jadolfbr
Tue, 2017-06-06 16:14
Normal topic Symmetrical Docking Example
by johnwo1990 » Wed, 2017-03-08 04:25
2
5,675 by johnwo1990
Thu, 2017-03-09 12:16
Normal topic symmetric design w/ hbnet and unsatisfied_buried_penalty score terms
by saz » Tue, 2020-12-08 11:37
3
2,220 by vmulligan
Fri, 2020-12-11 19:05
Normal topic setup_foldtree not maintaining partners
by alkaline_lemon » Fri, 2021-07-30 09:17
0
836 by alkaline_lemon
Fri, 2021-07-30 09:17
Normal topic Scripts accompanying Hossenzadeh et al, 2001
by Ken » Wed, 2022-01-19 07:38
0
683 by Ken
Wed, 2022-01-19 07:38
Normal topic Script running, but returns no results
by chinhsutran » Fri, 2013-11-22 06:19
2
4,277 by chinhsutran
Mon, 2014-04-21 06:48
Normal topic script recommendations? for high res docking from low res
by Amy F » Wed, 2019-05-01 07:59
3
3,549 by rmoretti
Thu, 2019-05-09 14:05
Normal topic Script not working
by jai_INMAS » Wed, 2013-06-12 04:38
8
15,191 by jai_INMAS
Mon, 2014-04-21 06:48
Normal topic Script for precalculating rotamer energies
by pachecoj » Tue, 2013-08-06 08:59
2
4,088 by MarkW
Mon, 2015-07-27 05:36
Normal topic script "rebuild and refinement" sampling methodology for allosteric coupling
by Stefan » Thu, 2011-07-14 09:27
1
4,104 by smlewis
Mon, 2014-04-21 06:47
Normal topic Scoring issues - differs from command line vs .py file - for a simple ddG loop
by ara » Mon, 2011-10-24 13:16
8
9,862 by ara
Mon, 2014-04-21 06:47
Normal topic scorefxn.show(pose) method in python shell and IDLE
by peony » Mon, 2013-07-08 01:34
14
19,440 by peony
Mon, 2014-04-21 06:48
Normal topic Residue Pair Energy
by sujigeorge1979 » Thu, 2020-02-13 03:36
0
1,389 by sujigeorge1979
Thu, 2020-02-13 20:06
Normal topic read_mdl_sdf function not defined(molfile_to_params.py)
by egecav » Wed, 2021-01-13 22:14
0
893 by egecav
Thu, 2021-01-14 21:51
Normal topic Reading and writing structures using streams
by Lior » Mon, 2012-01-09 09:05
1
2,974 by smlewis
Mon, 2014-04-21 06:47
Normal topic Pyrosetta: restrict repack (and minimization) to specific region
by kschu » Tue, 2019-07-02 10:52
6
7,191 by kschu
Wed, 2019-07-10 23:36
Normal topic PyRosetta Folding.py script
by twopint23oz » Sat, 2012-03-31 12:28
1
3,558 by twopint23oz
Mon, 2014-04-21 06:47
Normal topic Pyrosetta doesn't recognize the correct docking partners
by hamedkhakzad » Sun, 2018-12-23 11:54
0
1,348 by hamedkhakzad
Sun, 2018-12-23 11:54
Normal topic pyrosetta docking script not reading/finding pdb files
by Amy F » Tue, 2019-04-30 09:21
3
4,056 by danpf
Tue, 2019-04-30 12:02
Normal topic Protein Structure Prediction using PyRosetta, suggestions wanted :)
by oppopomoz » Tue, 2012-05-15 09:40
1
4,099 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Protein Structure Prediction
by Nuria » Thu, 2012-04-05 12:36
2
4,371 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Protein design - PyRosetta Script problem
by AOK » Wed, 2011-02-09 04:10
4
8,018 by smlewis
Mon, 2014-04-21 06:47
Normal topic problem of renamed atoms in running molfile_to_params.py
by hajar » Wed, 2020-04-22 19:17
1
2,180 by matteoferla
Mon, 2020-05-04 02:16
Normal topic params_list
by tjn » Tue, 2013-07-09 07:19
3
4,771 by tjn
Mon, 2014-04-21 06:48
Normal topic PackRotamersMover in another way
by hlinn » Mon, 2022-02-07 07:10
1
1,067 by rmoretti
Mon, 2022-02-07 08:57
Normal topic No read_resfile routine?
by gjbartlett » Mon, 2011-11-28 08:45
3
4,981 by gjbartlett
Mon, 2014-04-21 06:47
Normal topic Mutate residue with NCAA
by tttt » Fri, 2020-12-04 14:53
1
1,717 by vmulligan
Fri, 2020-12-04 15:25
Normal topic Multi Ligand docking to a protein
by Vaish86 » Sun, 2013-08-04 10:46
8
14,927 by xpzhang
Mon, 2014-04-21 06:48
Normal topic molfile_to_params.py
by iGemBoulder » Fri, 2019-08-02 12:15
5
5,799 by egecav
Mon, 2021-01-18 05:27
Normal topic Minimization of structure after each trial move in PackRotamersMover
by wymore-ornl » Fri, 2013-08-16 18:58
2
4,119 by wymore-ornl
Mon, 2014-04-21 06:48
Normal topic Loop modeling script - unwanted change of amino acid identities
by smith1634 » Fri, 2014-11-21 08:42
5
6,864 by rmoretti
Fri, 2014-12-05 00:47
Normal topic loop modeling error 'CcdLoopClosureMover' object is not callable
by jai_INMAS » Tue, 2013-10-22 01:23
1
3,101 by Labonte
Mon, 2014-09-08 09:07
Normal topic ligand.py script problem
by almeida » Tue, 2011-07-19 10:02
1
3,304 by msellers
Mon, 2014-04-21 06:47
Normal topic Is there a side-program enabling us to see the clashes and interactions between ligand and protein?
by egecav » Fri, 2021-02-05 04:42
0
906 by egecav
Fri, 2021-02-05 04:42
Normal topic insert pose into pose
by tttt » Sun, 2020-02-16 10:35
5
4,986 by tttt
Mon, 2020-02-17 08:01
Normal topic Incomplete Error message
by tlc55555 » Mon, 2019-07-22 14:47
1
1,901 by rmoretti
Mon, 2019-11-04 12:47
Normal topic How to make .frags files
by krosika1 » Thu, 2021-07-08 18:16
1
1,207 by zivben
Sun, 2021-08-01 02:44
Normal topic How can I insert my variable length fragmrnts library into pyrosetta?
by michelleqyh » Tue, 2020-08-04 07:28
0
1,072 by michelleqyh
Tue, 2020-08-04 07:28
Normal topic Help with ddg_monomer in pyrosetta
by covadiuc » Wed, 2018-01-10 08:30
1
2,270 by rmoretti
Tue, 2018-01-30 06:56
Normal topic getting .params file for a ligand composed of protein and lipid
by hajar » Wed, 2020-04-22 19:47
0
1,044 by hajar
Wed, 2020-04-22 19:47
Normal topic Freezing arbitrary backbone dihedral angles...
by Mon » Thu, 2015-09-03 07:45
7
9,252 by Mon
Thu, 2015-09-10 01:46
Normal topic Fragment Insertion to Generate a Loop
by zahra.mazh92 » Tue, 2019-10-08 12:50
0
1,438 by zahra.mazh92
Tue, 2019-10-08 12:50
Normal topic error with extend_terminus.py
by bigjim1309 » Wed, 2018-07-04 00:47
1
2,370 by MNP1986
Tue, 2018-07-31 05:17
Normal topic Error when run script "thread_pdb_from_alignment.py"
by carlos_andre » Fri, 2018-03-09 09:38
4
4,557 by carlos_andre
Tue, 2018-03-13 07:13
Normal topic error running the sample forlding script
by oppopomoz » Sat, 2012-03-17 06:15
1
3,049 by Sergey
Mon, 2014-04-21 06:47
Normal topic error running folding script on windows
by oppopomoz » Sun, 2012-03-18 15:56
2
4,063 by Sergey
Mon, 2014-04-21 06:47
Normal topic Error running D100_Docking.py
by Rodriguez » Fri, 2021-06-25 11:32
1
1,344 by matteoferla
Tue, 2021-06-29 08:54
Normal topic Efficient local energy computation
by Mon » Mon, 2014-11-17 08:57
10
13,072 by rmoretti
Fri, 2015-01-02 09:24
Normal topic dump_scored_pdb
by allan.ferrari » Wed, 2020-02-19 07:21
1
1,858 by jadolfbr
Wed, 2020-02-19 08:14
Normal topic docking.py auto-detect partners
by abdul » Sun, 2012-11-04 08:36
10
11,581 by abdul
Mon, 2014-04-21 06:47
Normal topic Docking.py - protocols.docking.DockingInitialPerturbation: moving together failed. Aborting DockingSlideIntoContact.
by pepfolder » Fri, 2012-06-08 13:56
7
10,960 by fradom
Mon, 2016-03-07 06:58
Normal topic Docking- Binding Energy
by abdul » Thu, 2012-11-15 02:56
10
16,109 by jai_INMAS
Mon, 2014-04-21 06:47
Normal topic Different Pose Energy Values before and after Dumping
by oppopomoz » Wed, 2013-02-06 09:35
8
10,558 by oppopomoz
Mon, 2014-04-21 06:47
Normal topic ddg Script Problem
by jadolfbr » Thu, 2011-05-12 00:56
7
9,157 by brspurri
Mon, 2014-04-21 06:47
Normal topic D100 Docking script error test.output
by Amy F » Fri, 2019-04-26 08:29
5
5,204 by Amy F
Tue, 2019-04-30 08:39
Normal topic creating a pose from a pdb style string
by mmertens » Fri, 2012-01-06 01:01
3
5,530 by smlewis
Mon, 2014-04-21 06:47
Normal topic create heparan sulfate using pyrosetta
by tarsis » Sat, 2018-12-15 23:11
2
2,547 by tarsis
Sun, 2018-12-16 20:21
Normal topic CONECT information for PDB files by raw sequence
by Fata » Wed, 2022-06-22 01:47
2
1,287 by Fata
Thu, 2022-06-23 07:56
Normal topic Changing the Number of Cycles of D110_DNA_interface.py Script
by mrodr26 » Mon, 2016-10-24 11:33
1
2,442 by rmoretti
Mon, 2016-11-14 13:56
Normal topic Bug with make_pose_from_sequence when incorporating non-standard ResidueTypes in PyRosetta
by twc254 » Sun, 2012-03-18 12:27
5
7,288 by twc254
Mon, 2014-04-21 06:47
Normal topic Argument Error while running Ligand_interface.py
by Karthik » Sat, 2021-03-13 21:54
0
877 by Karthik
Sat, 2021-03-13 21:54
Normal topic adding greek_alphabets in non-canonical AA parameter generation
by hajar » Wed, 2020-06-03 14:00
2
2,094 by hajar
Wed, 2020-06-03 15:41
Normal topic add water into protein interfaces using solvated rotamer?
by chinhsutran » Sat, 2013-07-20 07:33
5
6,951 by chinhsutran
Mon, 2014-04-21 06:48
Normal topic about deNovoProteinMimeticsGen2
by zhangying1990 » Mon, 2019-01-14 17:09
9
7,371 by sia
Wed, 2022-04-27 18:22
Normal topic 'DockingProtocol' object has no attribute 'setup_foldtree'
by karelk » Wed, 2011-05-04 06:24
3
5,628 by weitzner
Mon, 2014-04-21 06:47
Normal topic %time results = list(xml_obj(pose_obj)) error
by TENY BAEK » Wed, 2022-11-02 23:31
0
644 by TENY BAEK
Wed, 2022-11-02 23:31
Normal topic DockingProtocol().set_autofoldtree Question
by brspurri » Fri, 2011-06-03 08:07
2
4,019 by evan
Mon, 2014-04-21 06:47
Normal topic ConstantLengthFragSet(3)..read_fragment_file RuntimeError
by john8611 » Mon, 2014-09-29 07:53
1
3,622 by rmoretti
Mon, 2014-09-29 15:14
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