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Rosetta 3 - General

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Normal topic Energy updates in Rosetta 3.3
by gipsonb » Tue, 2011-10-11 09:58
2
2,323 by gipsonb
Mon, 2014-04-21 06:47
Normal topic possible error in make_fragments.pl and fix
by DanielK » Fri, 2012-04-27 02:23
2
2,547 by DanielK
Mon, 2014-04-21 06:47
Normal topic What is a "silent file"?
by lanselibai » Mon, 2014-09-22 02:43
2
6,169 by lanselibai
Mon, 2014-09-22 08:13
Normal topic H3 modelling scoring function
by aneamtu » Wed, 2017-12-27 23:10
2
1,825 by aneamtu
Mon, 2018-01-08 23:49
Normal topic -ignore_unrecognized_res doesn't work
by e3lm » Fri, 2022-05-06 14:47
2
528 by e3lm
Fri, 2022-05-06 16:10
Normal topic disulfide bridges in loop modeling
by pledor » Fri, 2010-08-06 06:49
2
2,755 by pledor
Mon, 2014-04-21 06:47
Normal topic Extracting PDBs from a Silent file: "Can't find residue type for ARG"
by avsrivatsa » Sat, 2020-10-17 16:20
2
1,240 by avsrivatsa
Mon, 2020-10-19 18:16
Normal topic PIPER-FlexPepDock protocol file apply_ftresult.py missing
by diasmarieli » Thu, 2021-11-04 06:33
2
971 by diasmarieli
Fri, 2021-11-26 05:11
Normal topic rna_denovo and minize_rna
by frits » Wed, 2013-07-10 00:22
2
2,616 by frits
Mon, 2014-04-21 06:48
Normal topic Chi values for side chains when switching from centroid mode
by MarkW » Fri, 2015-07-03 04:43
2
2,294 by MarkW
Fri, 2015-07-03 15:36
Normal topic Structure Prediction: Max Sequence Length?
by jcsaborio » Tue, 2009-07-14 12:10
2
3,517 by jcsaborio
Mon, 2014-04-21 06:47
Normal topic Which rosetta for antibody modelling?
by oppopomoz » Wed, 2013-04-24 09:10
2
2,614 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Question about CartesianMD
by orionshih » Sun, 2018-04-29 21:07
2
1,647 by orionshih
Tue, 2018-05-01 21:16
Normal topic Why does the sum of the per-residue total energy not match the whole score?
by matteoferla » Fri, 2021-07-09 08:36
2
964 by matteoferla
Mon, 2021-07-12 02:23
Normal topic help with perturbation docking please
by einew » Fri, 2011-03-25 16:16
2
2,747 by einew
Mon, 2014-04-21 06:47
Normal topic ERROR:: Exit from: src/core/fragment/ConstantLengthFragSet.cc line: 116
by phanvy » Wed, 2014-10-08 22:28
2
2,588 by phanvy
Wed, 2014-10-15 21:41
Normal topic rama energy term and explicit zero
by SergeyP » Sat, 2015-12-19 05:25
2
2,435 by SergeyP
Sun, 2015-12-20 01:44
Normal topic Calibur-linux binary or source code availability?
by jasnyderjr » Sat, 2016-12-10 23:36
2
2,387 by jadolfbr
Sun, 2016-12-11 10:53
Normal topic clean_pdb.py
by duz » Wed, 2021-03-24 13:36
2
1,368 by duz
Thu, 2021-04-01 09:34
Normal topic Checkpoints in Rosetta
by exchhattu » Mon, 2009-10-19 17:47
2
2,562 by exchhattu
Mon, 2014-04-21 06:47
Normal topic AbInitioRelax.mpi Hangs - Waiting for Job Request
by nleroy » Thu, 2019-10-31 07:30
2
1,593 by nleroy
Fri, 2019-11-08 12:44
Normal topic Rescoring regions of structures
by erin_cutts » Mon, 2013-07-22 04:43
2
2,630 by erin_cutts
Mon, 2014-04-21 06:48
Normal topic recommended function type for cross links data
by meravb » Sun, 2018-08-05 06:57
2
1,564 by rmoretti
Mon, 2018-08-20 11:51
Normal topic Performace Benchmarking
by Tushar Kush » Wed, 2019-12-04 02:50
2
1,778 by smlewis
Wed, 2019-12-04 13:07
Normal topic ligand dock residue selection
by Silice » Wed, 2009-08-12 08:57
2
2,424 by frichter
Mon, 2014-04-21 06:47
Normal topic Minimizing across jumps
by SenyorDrew » Thu, 2017-07-06 06:26
2
2,096 by SenyorDrew
Thu, 2017-07-06 07:48
Normal topic multi state protein design
by rohi » Fri, 2020-09-04 08:14
2
1,381 by rmoretti
Tue, 2021-02-09 13:45
Normal topic total_score changes when decomposing bb hbonds ref2015
by Liviu Copoiu » Mon, 2022-10-31 15:40
2
201 by Liviu Copoiu
Mon, 2022-10-31 16:03
Normal topic RosettaDOM
by ndousis » Sun, 2010-12-12 01:08
2
2,762 by ndousis
Mon, 2014-04-21 06:47
Normal topic filter score by I_sc and keep top 1000
by aaj » Tue, 2016-01-19 07:13
2
2,462 by aaj
Mon, 2016-02-22 07:43
Normal topic Different weights in the constraints for each stage of AbinitioRelax
by allan.ferrari » Sun, 2017-01-15 04:35
2
2,253 by smlewis
Sun, 2017-01-15 18:10
Normal topic weird prolines with hydroxyls from fixbb.linuxgccrelease
by louisclark » Wed, 2010-08-25 15:01
2
2,406 by louisclark
Mon, 2014-04-21 06:47
Normal topic Is CST_Design required for enzdes protocol?
by dasdevashishdas » Mon, 2018-09-03 00:51
2
1,853 by dasdevashishdas
Thu, 2018-09-27 03:35
Normal topic What is the best way to make a residue-specific SASA constraint?
by jmaly » Thu, 2020-01-23 16:40
2
1,663 by matteoferla
Wed, 2020-01-29 12:18
Normal topic problem plotting results from docking_analyser with provided Rscript
by madammolecular » Mon, 2021-02-01 14:44
2
1,057 by amystevens
Thu, 2021-09-30 14:18
Normal topic Weekly releases for commercial users?
by rjacak » Tue, 2022-03-22 07:48
2
565 by rjacak
Thu, 2022-03-31 10:53
Normal topic loop file
by banshee » Tue, 2013-06-04 13:26
2
2,357 by banshee
Mon, 2014-04-21 06:48
Normal topic Score Differences between Ab Initio Scoring and Rescore
by mmarlett » Wed, 2016-06-15 09:14
2
2,228 by mmarlett
Thu, 2016-06-16 07:06
Normal topic Design with non-canonical amino acids (NCAA)
by yinasun » Mon, 2019-08-05 00:34
2
1,846 by matteoferla
Thu, 2019-08-22 05:39
Normal topic Cluster Error
by justin » Mon, 2010-04-26 00:06
2
2,546 by justin
Mon, 2014-04-21 06:47
Normal topic jd2 time out error
by ytao » Mon, 2013-03-04 20:47
2
2,324 by ytao
Mon, 2014-04-21 06:47
Normal topic I can't find the workflow about modeling disordered regsion using rosetta?
by lihowe » Thu, 2011-12-29 03:45
2
2,737 by wangyr
Mon, 2014-04-21 06:47
Normal topic Does the energy score output by fixbb design have unit?
by Lindsay » Mon, 2012-06-18 15:03
2
2,704 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Configuration of Robetta fragment libraries
by Run » Fri, 2014-01-24 23:03
2
2,580 by Run
Mon, 2014-04-21 06:48
Normal topic activation of filters in rosetta3.0 or later
by exchhattu » Thu, 2009-12-03 17:52
2
2,370 by exchhattu
Mon, 2014-04-21 06:47
Normal topic Building Rosetta 3.1 for cs-Rosetta
by zdn3023 » Fri, 2010-02-26 14:31
2
2,572 by zdn3023
Mon, 2014-04-21 06:47
Normal topic loop design
by varma » Sun, 2012-11-04 21:25
2
3,412 by varma
Mon, 2014-04-21 06:47
Normal topic Jump::random_trans strange behavior
by SergeyP » Tue, 2015-11-03 07:56
2
2,193 by SergeyP
Sat, 2015-12-19 05:20
Normal topic How to transform a pose from symmetric into non-symmetric?
by msardejani » Tue, 2016-10-04 16:55
2
2,155 by msardejani
Wed, 2016-10-05 10:53
Normal topic error when running beta_strand_homodimer_design
by szypanther » Sun, 2014-05-25 20:22
2
3,120 by szypanther
Mon, 2014-05-26 22:03
Normal topic Ineffective Constraints
by Sandy » Tue, 2017-09-05 19:36
2
1,911 by CameronJA
Wed, 2022-01-19 20:50
Normal topic what is the relationship and difference between Rosetta 3.0 and miniRosetta
by jarod » Thu, 2010-05-06 20:57
2
2,494 by jarod
Mon, 2014-04-21 06:47
Normal topic Generate structural fragments
by kingljy » Tue, 2011-05-10 20:18
2
4,723 by pepfolder
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
1,501 by johnnytam100
Wed, 2019-05-15 18:45
Normal topic The -symmetry:perturb_rigid_body_dofs flag
by doranhen » Sat, 2012-04-28 13:01
2
2,385 by doranhen
Mon, 2014-04-21 06:47
Normal topic Write PDB with multiple side-chain configurations
by pachecoj » Tue, 2014-09-30 21:42
2
2,554 by pachecoj
Thu, 2014-10-09 18:15
Normal topic Expanding the silent file
by jharamesh » Fri, 2018-01-12 09:15
2
1,622 by rmoretti
Mon, 2018-01-15 14:35
Normal topic Undocumented changes in BackrubDD
by abhi_pe_acharya » Mon, 2018-07-16 00:24
2
1,582 by abhi_pe_acharya
Sun, 2018-08-05 22:03
Normal topic protein surface design
by tatsiana.bylund » Sun, 2019-09-15 03:44
2
1,467 by dfcoelho
Tue, 2019-11-19 10:16
Normal topic fixbb design use
by Lindsay » Fri, 2012-03-23 09:05
2
2,460 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Loop Modelling: ERROR: switch_to_residue_type_set fails
by smiruthi » Wed, 2012-07-18 14:48
2
3,170 by smlewis
Mon, 2014-04-21 06:47
Normal topic symmetric docking application rosetta3.2: the docking_local_refine flag
by doranhen » Sun, 2012-05-06 02:20
2
2,808 by doranhen
Mon, 2014-04-21 06:47
Normal topic sign of ddG of mutation
by Lindsay » Wed, 2013-11-27 00:25
2
3,988 by Lindsay
Mon, 2014-04-21 06:48
Normal topic Calculating binding affinity
by phanvy » Wed, 2014-10-15 23:35
2
4,027 by phanvy
Thu, 2014-10-16 18:54
Normal topic Repeating sequence in Rosetta de novo protein folding
by orionshih » Wed, 2018-02-07 20:52
2
1,691 by sheehajh
Thu, 2018-02-08 21:18
Normal topic perturb_temp flag
by Loki01 » Tue, 2018-11-27 05:06
2
1,543 by rmoretti
Wed, 2019-04-03 09:58
Normal topic Ligand being read as part of protein structure
by MarkusAurelius » Thu, 2021-04-01 11:00
2
1,078 by MarkusAurelius
Fri, 2021-04-02 11:44
Normal topic genkic mover produced an unwanted HN - CA bond
by cttm4a1 » Mon, 2022-06-20 14:25
2
378 by cttm4a1
Mon, 2022-06-20 16:58
Normal topic ddG backbone movement
by dave » Wed, 2012-10-03 03:23
2
2,659 by dave
Mon, 2014-04-21 06:47
Normal topic Do Rosetta support hydroxide(OH-) and oxide(O2-) params?
by dasdevashishdas » Thu, 2018-08-16 21:15
2
1,750 by dasdevashishdas
Thu, 2018-08-23 18:02
Normal topic Rosetta forcefield terms and interpretation
by zigeuner » Sat, 2013-05-25 16:59
2
4,346 by rmoretti
Mon, 2014-04-21 06:47
Normal topic dG/dsasa , What is the exact meaning?
by Apiwat » Sun, 2014-04-13 00:38
2
3,641 by Apiwat
Thu, 2014-04-17 09:56
Normal topic Rosetta CM round_thread.pdb doesn't exist and can't find pose (id = round)
by ahmadkhalifa » Wed, 2018-05-23 09:51
2
2,698 by rmoretti
Thu, 2018-06-28 14:09
Normal topic 4mer 6mer fragment database
by bjharris » Wed, 2020-09-09 15:12
2
1,354 by bjharris
Wed, 2020-09-09 20:04
Normal topic how does rosetta handle hydrogens?
by patcD » Tue, 2021-08-31 00:48
2
898 by patcD
Wed, 2021-09-01 06:54
Normal topic pose.energies().total_enegies().show_nonzero() changes after packer is applied
by Liviu Copoiu » Mon, 2022-11-07 16:51
2
233 by Liviu Copoiu
Tue, 2022-11-08 10:43
Normal topic Run PackRotamersMover on specified rotamer set
by pachecoj » Mon, 2014-11-10 06:51
2
2,423 by pachecoj
Tue, 2014-11-11 19:30
Normal topic Method for WebServer Fragment Generation
by Jacob_Verburgt » Tue, 2020-06-02 07:29
2
1,503 by Jacob_Verburgt
Tue, 2020-06-02 10:26
Normal topic Output and Input Tutorial
by jgustat » Fri, 2022-07-01 13:07
2
416 by jgustat
Fri, 2022-07-01 13:26
Normal topic Clustering Rosetta output PDB files
by ritacc18 » Sat, 2014-01-11 20:13
2
5,134 by jwillis
Sat, 2015-06-27 21:11
Normal topic What is "residue packing", "repacking", and so on?
by cossio » Wed, 2014-12-03 08:49
2
3,040 by cossio
Wed, 2014-12-03 14:51
Normal topic scoring with omega energy term
by SergeyP » Thu, 2017-03-09 12:03
2
2,219 by SergeyP
Fri, 2017-03-10 11:16
Normal topic Bug in Loop Modeling
by dseelig » Thu, 2010-09-23 05:55
2
2,327 by smlewis
Mon, 2014-04-21 06:47
Normal topic Running time of Rosetta/FlexPepDock
by gerdos » Thu, 2015-10-15 02:14
2
2,269 by gerdos
Fri, 2015-10-16 03:01
Normal topic Job Distribution Error
by ac.research » Mon, 2020-02-10 08:22
2
1,470 by ac.research
Fri, 2020-02-14 23:33
Normal topic make_fragments
by ctaylor » Mon, 2009-09-21 12:41
2
2,462 by ctaylor
Mon, 2014-04-21 06:47
Normal topic Loop modelling,
by berk » Sat, 2013-06-08 08:29
2
2,431 by berk
Mon, 2014-04-21 06:48
Normal topic How to generate symmdef file for translational symmetry only?
by pitmand » Thu, 2015-05-14 11:34
2
2,622 by pitmand
Tue, 2015-05-26 12:20
Normal topic Rigid Body & Flexible Minimization
by Hanieh » Thu, 2014-02-06 12:37
2
3,417 by Hanieh
Fri, 2014-02-28 12:43
Normal topic Error reading new residue .param file
by mgrom92 » Tue, 2016-03-22 12:54
2
3,843 by mgrom92
Wed, 2016-03-23 16:45
Normal topic GeneralizedKIC disulfide closure
by Ken » Tue, 2022-08-16 13:32
2
323 by Ken
Wed, 2022-08-17 08:04
Normal topic Rosetta numbering with missing occupancies
by ShaneOConnor » Fri, 2011-10-07 16:18
2
3,160 by ShaneOConnor
Mon, 2014-04-21 06:47
Normal topic RASREC - finding lowest energy structure
by Lati » Fri, 2015-11-20 03:08
2
2,373 by Lati
Tue, 2016-01-12 13:28
Normal topic DockingProtocol mover ensemble error
by dfcoelho » Tue, 2018-10-16 08:32
2
2,041 by brspurri
Thu, 2020-08-20 13:22
Normal topic Using mode=profile
by Biokhar » Fri, 2012-07-06 00:29
2
2,888 by scombs
Mon, 2014-04-21 06:47
Normal topic How to prevent rotamers from being pruned from the interaction graph?
by msun » Wed, 2013-04-17 14:19
2
2,415 by smlewis
Mon, 2014-04-21 06:47
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
2,133 by vmulligan
Thu, 2017-04-27 16:41
Normal topic The concept of unsatisfied hydrogen bond
by asbelx » Wed, 2018-04-25 01:32
2
2,377 by asbelx
Thu, 2018-04-26 00:23
Normal topic Controlling Input in the Tutorial
by Smbat » Wed, 2020-07-29 22:41
2
1,236 by Smbat
Thu, 2020-07-30 03:07
Normal topic Differences between energy values reported in the tutorials and the ones obtained by running the code, what is normal?
by ericlang » Mon, 2021-07-05 05:43
2
825 by ericlang
Mon, 2021-07-05 06:59
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