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Rosetta 3 - General

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Normal topic Why I_sc of Rosetta 2016.02 and 2018.21 are so different?
by eminegenetics » Mon, 2018-07-16 12:51
2
2,335 by eminegenetics
Wed, 2018-07-18 13:48
Normal topic Binary silent Output file reading problem
by wlzhang » Sun, 2014-04-20 17:47
1
2,341 by wlzhang
Sun, 2014-04-20 18:17
Normal topic Knowledge check on steric effects
by pachecoj » Thu, 2014-10-16 09:13
1
2,342 by rmoretti
Thu, 2014-10-16 10:33
Normal topic Rosetta (antibody_designer) performance
by Kihang _Youn » Wed, 2022-03-02 00:48
7
2,344 by Kihang _Youn
Thu, 2022-03-10 16:30
Normal topic where do new .params files go?
by einew » Wed, 2011-01-05 12:09
1
2,344 by smlewis
Mon, 2014-04-21 06:47
Normal topic I got the message "bad format in first line of silent file". How do I resolve this?
by monos_morpheus » Thu, 2011-02-03 21:09
1
2,346 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta membrane prediction!
by wtscrystal » Tue, 2009-11-17 05:55
0
2,348 by wtscrystal
Mon, 2014-04-21 06:47
Normal topic Reading chloride anions
by Martin Floor » Mon, 2018-08-27 14:29
2
2,357 by Martin Floor
Tue, 2018-08-28 13:21
Normal topic nbr_atom in ligand docking
by phanvy » Fri, 2015-07-03 07:40
1
2,357 by rmoretti
Fri, 2015-07-03 13:04
Normal topic All possible mutations
by abdullah_ahmed » Tue, 2011-01-04 02:11
1
2,372 by smlewis
Mon, 2014-04-21 06:47
Normal topic Generate full symmetric assembly from subsystem
by lj269 » Thu, 2011-04-28 20:04
1
2,374 by IAndre
Mon, 2014-04-21 06:47
Normal topic Design with non-canonical amino acids (NCAA)
by yinasun » Mon, 2019-08-05 00:34
2
2,377 by matteoferla
Thu, 2019-08-22 05:39
Normal topic About RosettaScript examples
by jiongzhang » Thu, 2012-03-08 10:50
1
2,377 by smlewis
Mon, 2014-04-21 06:47
Normal topic Read svn acces or acces to developmen version of rosetta
by knutjbj » Thu, 2010-12-09 17:06
1
2,379 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta Antibody: Unable to open file and terminates
by denatured » Thu, 2019-12-12 11:26
1
2,379 by denatured
Fri, 2019-12-13 11:19
Normal topic Hydrogen bond detection and shape complementarity
by sujigeorge1979 » Fri, 2019-06-14 02:39
3
2,380 by sujigeorge1979
Thu, 2019-06-27 01:30
Normal topic scorefunction Talaris2013
by dave » Tue, 2015-03-03 02:13
1
2,381 by rmoretti
Thu, 2015-04-02 12:52
Normal topic How to specify constraints during fold-and-dock?
by sarah_b » Tue, 2020-05-12 01:55
3
2,381 by matteoferla
Thu, 2020-05-14 07:01
Normal topic MoveMap file for backrub
by jiyongpark.77 » Sat, 2009-07-18 03:53
1
2,382 by smlewis
Mon, 2014-04-21 06:47
Normal topic Is it possible to use two broker files
by kalabharath » Wed, 2011-06-08 01:01
1
2,385 by smlewis
Mon, 2014-04-21 06:47
Normal topic Entropy calculation
by abdullah_ahmed » Wed, 2010-12-01 07:52
1
2,386 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to score the crystal structure?
by vsjasion » Fri, 2011-11-18 15:49
1
2,387 by rmoretti
Mon, 2014-04-21 06:47
Normal topic start pose and native pose don't match in lengh
by zhisheng » Thu, 2011-12-15 10:23
1
2,389 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaHoles in 3.1
by enoee » Thu, 2010-10-14 07:12
1
2,390 by smlewis
Mon, 2014-04-21 06:47
Normal topic score function for centroid mode
by MarkW » Thu, 2015-02-26 08:56
1
2,392 by jadolfbr
Fri, 2015-02-27 11:08
Normal topic Error message: ArchiveManager spinning down
by Lati » Sun, 2016-01-24 02:42
1
2,392 by smlewis
Sun, 2016-01-24 03:24
Normal topic Possible documentation error
by imurch » Tue, 2012-04-17 00:11
1
2,393 by Anonymous
Mon, 2014-04-21 06:47
Normal topic About Rosetta Scoring Function
by wszjzhang » Wed, 2010-02-03 09:22
1
2,397 by smlewis
Mon, 2014-04-21 06:47
Normal topic Free FSC score for validating refinement
by ahmadkhalifa » Thu, 2018-05-10 05:53
2
2,397 by ahmadkhalifa
Fri, 2018-06-29 07:54
Normal topic What is the different between dun08 and default dunbrack library?
by SunH » Mon, 2010-11-08 06:14
1
2,405 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to create a rotamer set that includes all possible rotamers of all possible amino acids
by AyushGoyal » Thu, 2014-11-06 10:37
1
2,414 by smlewis
Fri, 2014-11-07 12:03
Normal topic How to minimize only a few key residues' orientation
by Ronghai Cheng » Mon, 2018-11-05 18:37
2
2,416 by Ronghai Cheng
Tue, 2018-11-13 21:56
Normal topic general question about protein docking
by albumns » Mon, 2010-12-13 23:26
1
2,428 by JeffreyGray
Mon, 2014-04-21 06:47
Normal topic Error with simple_cycpep_predict protocol while using a native pdb file
by Florent Langenfeld » Tue, 2019-03-26 10:05
3
2,429 by Florent Langenfeld
Tue, 2020-09-22 03:03
Normal topic Generating Protein/NA decoys
by rbeier1 » Mon, 2016-01-11 03:25
1
2,431 by rmoretti
Thu, 2016-04-28 16:25
Normal topic How to site the scoring application in rosetta3.1?
by doranhen » Thu, 2012-07-05 10:07
1
2,431 by smlewis
Mon, 2014-04-21 06:47
Normal topic Parametrisation problems
by DmitriiN » Tue, 2016-05-31 09:37
2
2,433 by DmitriiN
Wed, 2016-06-01 15:46
Normal topic Performace Benchmarking
by Tushar Kush » Wed, 2019-12-04 02:50
2
2,433 by smlewis
Wed, 2019-12-04 13:07
Normal topic pdb 2 silent with ss information
by kalabharath » Sun, 2013-04-14 20:59
1
2,435 by smlewis
Mon, 2014-04-21 06:47
Normal topic Fusing C-terminal or N-terminal segments onto proteins using Remodel
by achambe » Tue, 2016-01-05 09:39
1
2,435 by achambe
Wed, 2016-01-13 10:46
Normal topic could restta consider the flexibility of backbone duirng protein docking?
by albumns » Wed, 2010-11-24 01:00
1
2,447 by smlewis
Mon, 2014-04-21 06:47
Normal topic params file for beta-amino acids
by phonez » Mon, 2021-03-29 18:30
4
2,451 by everyday847
Thu, 2021-04-01 11:59
Normal topic Explanation of constraint functions?
by aloshbau » Mon, 2015-12-14 22:38
2
2,453 by aloshbau
Mon, 2015-12-14 23:30
Normal topic How to generate a symmetry definition file for octahedral symmetry?
by Anonymous » Wed, 2012-08-15 05:20
0
2,459 by Anonymous
Mon, 2014-04-21 06:47
Normal topic problems with cluster program
by umeshghosh » Thu, 2010-04-08 07:45
1
2,460 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddG average energy
by dave » Wed, 2013-04-03 03:36
1
2,461 by rmoretti
Mon, 2014-04-21 06:47
Normal topic packing option "explicit_h2o" and "solvate"
by SunH » Wed, 2010-11-17 00:03
1
2,463 by smlewis
Mon, 2014-04-21 06:47
Normal topic adding NCAA to the N-terminal of RCSB pdb
by ate » Tue, 2021-06-08 08:24
4
2,464 by Subhrodeep Saha
Sat, 2021-06-19 07:17
Normal topic ERROR: filtered_alignments.size() > 0
by jhbrown » Tue, 2012-01-17 13:28
2
2,468 by jhbrown
Mon, 2014-04-21 06:47
Normal topic Is the Fold&Dock protocol availabe in Rosetta3.1
by justin » Mon, 2011-01-17 02:41
2
2,471 by smlewis
Mon, 2014-04-21 06:47
Normal topic reporting IteratedConvergence status
by sdh_h » Thu, 2016-08-04 10:05
2
2,478 by sdh_h
Thu, 2016-08-04 11:22
Normal topic angle constraints
by gw » Tue, 2011-07-19 07:49
1
2,480 by smlewis
Mon, 2014-04-21 06:47
Normal topic RestrictToRepackingRLT and PreventRepackingRLT
by coomteng@gmail.com » Mon, 2018-03-05 11:19
2
2,486 by coomteng@gmail.com
Tue, 2018-03-06 02:31
Normal topic mode=release compile on a mac-pro , seg faults and bus errors
by dnasmith » Thu, 2010-09-09 16:56
2
2,486 by dnasmith
Mon, 2014-04-21 06:47
Normal topic "unrecognized aa ACT"
by einew » Sat, 2011-08-27 14:58
1
2,487 by smlewis
Mon, 2014-04-21 06:47
Normal topic Meaning of a couple terms?
by aloshbau » Sun, 2016-02-07 16:48
2
2,487 by aloshbau
Sun, 2016-02-14 20:14
Normal topic Is it better to have smaller nstruct but many runs?
by Loki01 » Mon, 2018-11-19 11:50
3
2,487 by smlewis
Mon, 2018-11-19 13:20
Normal topic Minimizing across jumps
by SenyorDrew » Thu, 2017-07-06 06:26
2
2,491 by SenyorDrew
Thu, 2017-07-06 07:48
Normal topic Snugdock and antibody modelling
by sudhar » Thu, 2010-06-10 08:13
1
2,494 by smlewis
Mon, 2014-04-21 06:47
Normal topic DockingProtocol mover ensemble error
by dfcoelho » Tue, 2018-10-16 08:32
2
2,495 by brspurri
Thu, 2020-08-20 13:22
Normal topic De novo density assembly weights don't add up to a 100
by ahmadkhalifa » Fri, 2018-08-03 12:07
3
2,499 by rmoretti
Tue, 2019-10-22 07:05
Normal topic Intel Compiler and OS X Intel
by bene » Tue, 2009-10-20 10:20
1
2,500 by smlewis
Mon, 2014-04-21 06:47
Normal topic Changing Monte Carlo temperature for relax
by jruhym » Thu, 2012-02-02 15:18
1
2,503 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Will Rosetta Flexpepdock be adequate for this for now.?
by monos_morpheus » Wed, 2011-04-27 19:10
1
2,505 by londonir
Mon, 2014-04-21 06:47
Normal topic the problem in making fragments
by croshong » Thu, 2009-12-03 17:15
1
2,515 by smlewis
Mon, 2014-04-21 06:47
Normal topic runtime error
by exchhattu » Wed, 2010-03-03 02:54
2
2,516 by exchhattu
Mon, 2014-04-21 06:47
Normal topic error in cluster running
by albumns » Mon, 2011-09-05 00:24
1
2,533 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Evaluate Docking Result
by byin » Thu, 2014-07-03 11:31
1
2,534 by rmoretti
Wed, 2014-07-16 08:07
Normal topic Getting started with Rosetta
by myang » Tue, 2009-04-07 16:25
1
2,538 by smlewis
Mon, 2014-04-21 06:47
Normal topic Can rosetta model cyclic peptide?
by Apiwat » Fri, 2014-02-07 02:08
1
2,541 by rmoretti
Tue, 2014-02-11 06:24
Normal topic Membrane AbInitio
by coxford » Sat, 2012-12-22 05:06
0
2,543 by coxford
Mon, 2014-04-21 06:47
Normal topic harmonic_Calphas in RosettaLigand flags.txt
by cpkuntz » Wed, 2010-07-14 08:57
2
2,543 by smlewis
Mon, 2014-04-21 06:47
Normal topic Dumb question: Rosetta 3 vs Rosetta++, what's the difference?
by mintseris » Tue, 2013-12-31 13:03
1
2,544 by rmoretti
Mon, 2014-04-21 06:48
Normal topic prepack vs. relax with bb_cst
by Anonymous » Mon, 2012-06-25 06:50
1
2,545 by smlewis
Mon, 2014-04-21 06:47
Normal topic Predict the N-terminal of a protein
by aliaselin » Mon, 2010-11-08 03:23
2
2,546 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to transform a pose from symmetric into non-symmetric?
by msardejani » Tue, 2016-10-04 16:55
2
2,549 by msardejani
Wed, 2016-10-05 10:53
Normal topic backbone-independent density
by SergeyP » Sun, 2016-03-20 04:57
2
2,550 by SergeyP
Thu, 2016-05-05 02:07
Normal topic generating 10 lowest energy structures from abinitio
by isengupta13 » Fri, 2010-05-07 11:44
2
2,551 by ndousis
Mon, 2014-04-21 06:47
Normal topic Abinitio isolated
by ac.research » Wed, 2018-04-04 07:36
3
2,555 by smlewis
Wed, 2018-04-04 10:42
Normal topic Adding centroid .params files for non-canonical residues based on all-atom .params files
by jcminerlanl » Thu, 2017-04-27 09:28
2
2,562 by vmulligan
Thu, 2017-04-27 16:41
Normal topic AtomTree::torsion_angle() can't find dof! in match and enzdes
by petrikigor » Fri, 2012-10-19 09:49
1
2,575 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Jump::random_trans strange behavior
by SergeyP » Tue, 2015-11-03 07:56
2
2,576 by SergeyP
Sat, 2015-12-19 05:20
Normal topic how to docking including HETATM
by tricia » Tue, 2009-05-05 22:03
1
2,576 by smlewis
Mon, 2014-04-21 06:47
Normal topic Add a ligand with only one atom (i.e. Zn) to the RosettaCM
by lanselibai » Tue, 2021-06-22 10:28
6
2,577 by rmoretti
Thu, 2021-06-24 12:23
Normal topic no template pdb provided for alignment
by HZHANG020 » Sat, 2014-06-14 06:27
1
2,578 by rmoretti
Mon, 2014-06-16 08:23
Normal topic -RBSegmentRelax:cst_wt not present in ca_to_allatom.linuxgccrelease application?
by Karol » Thu, 2016-05-12 06:30
2
2,585 by Karol
Thu, 2016-05-12 07:58
Normal topic Protein-Protein Docking
by hwillis » Fri, 2009-08-07 01:31
1
2,588 by smlewis
Mon, 2014-04-21 06:47
Normal topic input secondary structure prediction to AbinitioRelax
by biofisikx » Mon, 2010-08-09 12:36
2
2,600 by biofisikx
Mon, 2014-04-21 06:47
Normal topic How to specify residue numbers in a resfile for a batch of pdbs, while some of them have missing residue numbers?
by johnnytam100 » Wed, 2019-05-08 02:30
2
2,601 by johnnytam100
Wed, 2019-05-15 18:45
Normal topic Score Differences between Ab Initio Scoring and Rescore
by mmarlett » Wed, 2016-06-15 09:14
2
2,608 by mmarlett
Thu, 2016-06-16 07:06
Normal topic how to relax structure constraining CA in Rosetta3.2?
by albumns » Tue, 2011-02-15 06:15
2
2,609 by smlewis
Mon, 2014-04-21 06:47
Normal topic Constraining a docking study
by jos » Tue, 2011-10-18 05:26
2
2,610 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Using a broker file with relax
by Al52 » Mon, 2015-11-30 20:24
2
2,615 by Al52
Tue, 2015-12-01 18:22
Normal topic Missing atoms, unable to fill in missing atoms
by kwu030 » Fri, 2023-05-05 12:58
12
2,619 by kwu030
Thu, 2023-05-18 08:31
Normal topic Propagating the same mutation over "different" chains
by mdeklotz » Thu, 2018-07-26 09:27
3
2,623 by rmoretti
Fri, 2018-08-03 08:42
Normal topic abintio clustering - funnel plot
by vamsi » Fri, 2011-03-25 09:18
1
2,623 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error in RMSD calculation when native sequence deviates
by abdullah » Tue, 2009-11-10 08:56
1
2,634 by smlewis
Mon, 2014-04-21 06:47
Normal topic protein-protien docking with uniform trans
by lkingsle » Thu, 2012-02-09 07:19
1
2,635 by mpacella
Mon, 2014-04-21 06:47
Normal topic can not find a residue type that matches the residue HIS_P:NtermProteinFull
by tarsis » Wed, 2017-04-05 08:51
1
2,642 by rmoretti
Fri, 2017-04-14 08:37
Normal topic could ab initio support running mpi?
by albumns » Mon, 2010-07-05 01:13
1
2,643 by smlewis
Mon, 2014-04-21 06:47
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