You are here
Rosetta 3 - General
Log in to post new content in the forum.
| Topic / Topic starter |
Replies |
Views | Last post | |
|---|---|---|---|---|
|
rna_denovo and minize_rna by frits » Wed, 2013-07-10 00:22 |
2 |
2,741 |
by frits Mon, 2014-04-21 06:48 |
|
|
Chi values for side chains when switching from centroid mode by MarkW » Fri, 2015-07-03 04:43 |
2 |
2,393 |
by MarkW Fri, 2015-07-03 15:36 |
|
|
SnugDock equivalent in newer Rosetta code by SenyorDrew » Tue, 2016-03-29 09:16 |
2 |
2,401 |
by SenyorDrew Wed, 2016-04-06 10:52 |
|
|
where is PyIgClassfiy.py ? by mxp » Tue, 2020-07-07 23:57 |
2 |
1,354 |
by mxp Wed, 2020-07-08 23:25 |
|
|
activation of filters in rosetta3.0 or later by exchhattu » Thu, 2009-12-03 17:52 |
2 |
2,464 |
by exchhattu Mon, 2014-04-21 06:47 |
|
|
mode=release compile on a mac-pro , seg faults and bus errors by dnasmith » Thu, 2010-09-09 16:56 |
2 |
2,260 |
by dnasmith Mon, 2014-04-21 06:47 |
|
|
Energy updates in Rosetta 3.3 by gipsonb » Tue, 2011-10-11 09:58 |
2 |
2,417 |
by gipsonb Mon, 2014-04-21 06:47 |
|
|
possible error in make_fragments.pl and fix by DanielK » Fri, 2012-04-27 02:23 |
2 |
2,650 |
by DanielK Mon, 2014-04-21 06:47 |
|
|
What is a "silent file"? by lanselibai » Mon, 2014-09-22 02:43 |
2 |
6,398 |
by lanselibai Mon, 2014-09-22 08:13 |
|
|
H3 modelling scoring function by aneamtu » Wed, 2017-12-27 23:10 |
2 |
1,932 |
by aneamtu Mon, 2018-01-08 23:49 |
|
|
-ignore_unrecognized_res doesn't work by e3lm » Fri, 2022-05-06 14:47 |
2 |
660 |
by e3lm Fri, 2022-05-06 16:10 |
|
|
Extracting PDBs from a Silent file: "Can't find residue type for ARG" by avsrivatsa » Sat, 2020-10-17 16:20 |
2 |
1,370 |
by avsrivatsa Mon, 2020-10-19 18:16 |
|
|
PIPER-FlexPepDock protocol file apply_ftresult.py missing by diasmarieli » Thu, 2021-11-04 06:33 |
2 |
1,096 |
by diasmarieli Fri, 2021-11-26 05:11 |
|
|
AbInitioRelax.mpi Hangs - Waiting for Job Request by nleroy » Thu, 2019-10-31 07:30 |
2 |
1,750 |
by nleroy Fri, 2019-11-08 12:44 |
|
|
Fix missing backbone residues by Matthys » Mon, 2010-05-03 09:03 |
2 |
3,326 |
by Matthys Mon, 2014-04-21 06:47 |
|
|
Which rosetta for antibody modelling? by oppopomoz » Wed, 2013-04-24 09:10 |
2 |
2,708 |
by jadolfbr Mon, 2014-04-21 06:47 |
|
|
Question about CartesianMD by orionshih » Sun, 2018-04-29 21:07 |
2 |
1,743 |
by orionshih Tue, 2018-05-01 21:16 |
|
|
Why does the sum of the per-residue total energy not match the whole score? by matteoferla » Fri, 2021-07-09 08:36 |
2 |
1,108 |
by matteoferla Mon, 2021-07-12 02:23 |
|
|
help with perturbation docking please by einew » Fri, 2011-03-25 16:16 |
2 |
2,836 |
by einew Mon, 2014-04-21 06:47 |
|
|
ERROR:: Exit from: src/core/fragment/ConstantLengthFragSet.cc line: 116 by phanvy » Wed, 2014-10-08 22:28 |
2 |
2,693 |
by phanvy Wed, 2014-10-15 21:41 |
|
|
rama energy term and explicit zero by SergeyP » Sat, 2015-12-19 05:25 |
2 |
2,539 |
by SergeyP Sun, 2015-12-20 01:44 |
|
|
Calibur-linux binary or source code availability? by jasnyderjr » Sat, 2016-12-10 23:36 |
2 |
2,494 |
by jadolfbr Sun, 2016-12-11 10:53 |
|
|
clean_pdb.py by duz » Wed, 2021-03-24 13:36 |
2 |
1,593 |
by duz Thu, 2021-04-01 09:34 |
|
|
Rescoring regions of structures by erin_cutts » Mon, 2013-07-22 04:43 |
2 |
2,731 |
by erin_cutts Mon, 2014-04-21 06:48 |
|
|
recommended function type for cross links data by meravb » Sun, 2018-08-05 06:57 |
2 |
1,655 |
by rmoretti Mon, 2018-08-20 11:51 |
|
|
Performace Benchmarking by Tushar Kush » Wed, 2019-12-04 02:50 |
2 |
1,972 |
by smlewis Wed, 2019-12-04 13:07 |
|
|
disulfide bridges in loop modeling by pledor » Fri, 2010-08-06 06:49 |
2 |
2,858 |
by pledor Mon, 2014-04-21 06:47 |
|
|
Fold tree error by mansi » Tue, 2010-05-18 07:43 |
2 |
3,544 |
by mansi Mon, 2014-04-21 06:47 |
|
|
Minimizing across jumps by SenyorDrew » Thu, 2017-07-06 06:26 |
2 |
2,195 |
by SenyorDrew Thu, 2017-07-06 07:48 |
|
|
multi state protein design by rohi » Fri, 2020-09-04 08:14 |
2 |
1,510 |
by rmoretti Tue, 2021-02-09 13:45 |
|
|
total_score changes when decomposing bb hbonds ref2015 by Liviu Copoiu » Mon, 2022-10-31 15:40 |
2 |
319 |
by Liviu Copoiu Mon, 2022-10-31 16:03 |
|
|
relax with restraints by jtmacd » Mon, 2010-11-08 09:11 |
2 |
2,559 |
by jtmacd Mon, 2014-04-21 06:47 |
|
|
filter score by I_sc and keep top 1000 by aaj » Tue, 2016-01-19 07:13 |
2 |
2,564 |
by aaj Mon, 2016-02-22 07:43 |
|
|
Different weights in the constraints for each stage of AbinitioRelax by allan.ferrari » Sun, 2017-01-15 04:35 |
2 |
2,354 |
by smlewis Sun, 2017-01-15 18:10 |
|
|
jd2 time out error by ytao » Mon, 2013-03-04 20:47 |
2 |
2,406 |
by ytao Mon, 2014-04-21 06:47 |
|
|
Is CST_Design required for enzdes protocol? by dasdevashishdas » Mon, 2018-09-03 00:51 |
2 |
1,991 |
by dasdevashishdas Thu, 2018-09-27 03:35 |
|
|
What is the best way to make a residue-specific SASA constraint? by jmaly » Thu, 2020-01-23 16:40 |
2 |
1,836 |
by matteoferla Wed, 2020-01-29 12:18 |
|
|
problem plotting results from docking_analyser with provided Rscript by madammolecular » Mon, 2021-02-01 14:44 |
2 |
1,164 |
by amystevens Thu, 2021-09-30 14:18 |
|
|
Weekly releases for commercial users? by rjacak » Tue, 2022-03-22 07:48 |
2 |
700 |
by rjacak Thu, 2022-03-31 10:53 |
|
|
FlexPepDocking.mpi.linuxgccrelease bails out ERROR: total_residue() != 0 ERROR:: Exit from: src/core/pose/Pose.cc line: 1369 by knutjbj » Thu, 2011-02-03 03:24 |
2 |
4,206 |
by knutjbj Mon, 2014-04-21 06:47 |
|
|
loop file by banshee » Tue, 2013-06-04 13:26 |
2 |
2,449 |
by banshee Mon, 2014-04-21 06:48 |
|
|
Score Differences between Ab Initio Scoring and Rescore by mmarlett » Wed, 2016-06-15 09:14 |
2 |
2,327 |
by mmarlett Thu, 2016-06-16 07:06 |
|
|
Design with non-canonical amino acids (NCAA) by yinasun » Mon, 2019-08-05 00:34 |
2 |
1,985 |
by matteoferla Thu, 2019-08-22 05:39 |
|
|
I can't find the workflow about modeling disordered regsion using rosetta? by lihowe » Thu, 2011-12-29 03:45 |
2 |
2,828 |
by wangyr Mon, 2014-04-21 06:47 |
|
|
Does the energy score output by fixbb design have unit? by Lindsay » Mon, 2012-06-18 15:03 |
2 |
2,808 |
by Lindsay Mon, 2014-04-21 06:47 |
|
|
Configuration of Robetta fragment libraries by Run » Fri, 2014-01-24 23:03 |
2 |
2,680 |
by Run Mon, 2014-04-21 06:48 |
|
|
loop design by varma » Sun, 2012-11-04 21:25 |
2 |
3,557 |
by varma Mon, 2014-04-21 06:47 |
|
|
Jump::random_trans strange behavior by SergeyP » Tue, 2015-11-03 07:56 |
2 |
2,289 |
by SergeyP Sat, 2015-12-19 05:20 |
|
|
How to transform a pose from symmetric into non-symmetric? by msardejani » Tue, 2016-10-04 16:55 |
2 |
2,245 |
by msardejani Wed, 2016-10-05 10:53 |
|
|
make_fragments by ctaylor » Mon, 2009-09-21 12:41 |
2 |
2,574 |
by ctaylor Mon, 2014-04-21 06:47 |
|
|
error when running beta_strand_homodimer_design by szypanther » Sun, 2014-05-25 20:22 |
2 |
3,220 |
by szypanther Mon, 2014-05-26 22:03 |
|
|
Ineffective Constraints by Sandy » Tue, 2017-09-05 19:36 |
2 |
2,010 |
by CameronJA Wed, 2022-01-19 20:50 |
|
|
Undocumented changes in BackrubDD by abhi_pe_acharya » Mon, 2018-07-16 00:24 |
2 |
1,693 |
by abhi_pe_acharya Sun, 2018-08-05 22:03 |
|
|
protein surface design by tatsiana.bylund » Sun, 2019-09-15 03:44 |
2 |
1,584 |
by dfcoelho Tue, 2019-11-19 10:16 |
|
|
how to relax structure constraining CA in Rosetta3.2? by albumns » Tue, 2011-02-15 06:15 |
2 |
2,339 |
by smlewis Mon, 2014-04-21 06:47 |
|
|
fixbb design use by Lindsay » Fri, 2012-03-23 09:05 |
2 |
2,563 |
by Lindsay Mon, 2014-04-21 06:47 |
|
|
Cluster Error by justin » Mon, 2010-04-26 00:06 |
2 |
2,644 |
by justin Mon, 2014-04-21 06:47 |
|
|
Generate structural fragments by kingljy » Tue, 2011-05-10 20:18 |
2 |
4,827 |
by pepfolder Mon, 2014-04-21 06:47 |
|
|
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 |
1,812 |
by johnnytam100 Wed, 2019-05-15 18:45 |
|
|
Can't find the source code of FlexPepDock protocol in Rosetta3.1 by SunH » Thu, 2010-09-16 06:28 |
2 |
2,534 |
by barak Mon, 2014-04-21 06:47 |
|
|
The -symmetry:perturb_rigid_body_dofs flag by doranhen » Sat, 2012-04-28 13:01 |
2 |
2,492 |
by doranhen Mon, 2014-04-21 06:47 |
|
|
Write PDB with multiple side-chain configurations by pachecoj » Tue, 2014-09-30 21:42 |
2 |
2,665 |
by pachecoj Thu, 2014-10-09 18:15 |
|
|
Expanding the silent file by jharamesh » Fri, 2018-01-12 09:15 |
2 |
1,718 |
by rmoretti Mon, 2018-01-15 14:35 |
|
|
what is the relationship and difference between Rosetta 3.0 and miniRosetta by jarod » Thu, 2010-05-06 20:57 |
2 |
2,594 |
by jarod Mon, 2014-04-21 06:47 |
|
|
Loop Modelling: ERROR: switch_to_residue_type_set fails by smiruthi » Wed, 2012-07-18 14:48 |
2 |
3,263 |
by smlewis Mon, 2014-04-21 06:47 |
|
|
Building Rosetta 3.1 for cs-Rosetta by zdn3023 » Fri, 2010-02-26 14:31 |
2 |
2,677 |
by zdn3023 Mon, 2014-04-21 06:47 |
|
|
symmetric docking application rosetta3.2: the docking_local_refine flag by doranhen » Sun, 2012-05-06 02:20 |
2 |
2,905 |
by doranhen Mon, 2014-04-21 06:47 |
|
|
sign of ddG of mutation by Lindsay » Wed, 2013-11-27 00:25 |
2 |
4,136 |
by Lindsay Mon, 2014-04-21 06:48 |
|
|
Calculating binding affinity by phanvy » Wed, 2014-10-15 23:35 |
2 |
4,172 |
by phanvy Thu, 2014-10-16 18:54 |
|
|
Repeating sequence in Rosetta de novo protein folding by orionshih » Wed, 2018-02-07 20:52 |
2 |
1,787 |
by sheehajh Thu, 2018-02-08 21:18 |
|
|
perturb_temp flag by Loki01 » Tue, 2018-11-27 05:06 |
2 |
1,652 |
by rmoretti Wed, 2019-04-03 09:58 |
|
|
Ligand being read as part of protein structure by MarkusAurelius » Thu, 2021-04-01 11:00 |
2 |
1,217 |
by MarkusAurelius Fri, 2021-04-02 11:44 |
|
|
genkic mover produced an unwanted HN - CA bond by cttm4a1 » Mon, 2022-06-20 14:25 |
2 |
506 |
by cttm4a1 Mon, 2022-06-20 16:58 |
|
|
Problems in Loop Modeling by jklett » Mon, 2009-10-19 07:26 |
2 |
2,923 |
by jklett Mon, 2014-04-21 06:47 |
|
|
Run PackRotamersMover on specified rotamer set by pachecoj » Mon, 2014-11-10 06:51 |
2 |
2,517 |
by pachecoj Tue, 2014-11-11 19:30 |
|
|
Method for WebServer Fragment Generation by Jacob_Verburgt » Tue, 2020-06-02 07:29 |
2 |
1,629 |
by Jacob_Verburgt Tue, 2020-06-02 10:26 |
|
|
Output and Input Tutorial by jgustat » Fri, 2022-07-01 13:07 |
2 |
556 |
by jgustat Fri, 2022-07-01 13:26 |
|
|
ddG backbone movement by dave » Wed, 2012-10-03 03:23 |
2 |
2,751 |
by dave Mon, 2014-04-21 06:47 |
|
|
Do Rosetta support hydroxide(OH-) and oxide(O2-) params? by dasdevashishdas » Thu, 2018-08-16 21:15 |
2 |
1,853 |
by dasdevashishdas Thu, 2018-08-23 18:02 |
|
|
Rosetta forcefield terms and interpretation by zigeuner » Sat, 2013-05-25 16:59 |
2 |
4,466 |
by rmoretti Mon, 2014-04-21 06:47 |
|
|
dG/dsasa , What is the exact meaning? by Apiwat » Sun, 2014-04-13 00:38 |
2 |
3,827 |
by Apiwat Thu, 2014-04-17 09:56 |
|
|
Rosetta CM round_thread.pdb doesn't exist and can't find pose (id = round) by ahmadkhalifa » Wed, 2018-05-23 09:51 |
2 |
2,874 |
by rmoretti Thu, 2018-06-28 14:09 |
|
|
4mer 6mer fragment database by bjharris » Wed, 2020-09-09 15:12 |
2 |
1,450 |
by bjharris Wed, 2020-09-09 20:04 |
|
|
how does rosetta handle hydrogens? by patcD » Tue, 2021-08-31 00:48 |
2 |
1,014 |
by patcD Wed, 2021-09-01 06:54 |
|
|
pose.energies().total_enegies().show_nonzero() changes after packer is applied by Liviu Copoiu » Mon, 2022-11-07 16:51 |
2 |
351 |
by Liviu Copoiu Tue, 2022-11-08 10:43 |
|
|
Clustering Rosetta output PDB files by ritacc18 » Sat, 2014-01-11 20:13 |
2 |
5,283 |
by jwillis Sat, 2015-06-27 21:11 |
|
|
What is "residue packing", "repacking", and so on? by cossio » Wed, 2014-12-03 08:49 |
2 |
3,192 |
by cossio Wed, 2014-12-03 14:51 |
|
|
scoring with omega energy term by SergeyP » Thu, 2017-03-09 12:03 |
2 |
2,324 |
by SergeyP Fri, 2017-03-10 11:16 |
|
|
Running time of Rosetta/FlexPepDock by gerdos » Thu, 2015-10-15 02:14 |
2 |
2,368 |
by gerdos Fri, 2015-10-16 03:01 |
|
|
Job Distribution Error by ac.research » Mon, 2020-02-10 08:22 |
2 |
1,584 |
by ac.research Fri, 2020-02-14 23:33 |
|
|
RuntimeError: CUDA out of memory. by ravi.thakkar » Tue, 2023-03-07 00:27 |
2 |
210 |
by rmoretti Tue, 2023-03-07 08:18 |
|
|
Intermediate file insertion by exchhattu » Wed, 2009-09-02 18:44 |
2 |
2,399 |
by exchhattu Mon, 2014-04-21 06:47 |
|
|
I got the message "ERROR: Residue names must be unique!". by monos_morpheus » Sun, 2011-02-06 03:55 |
2 |
3,376 |
by monos_morpheus Mon, 2014-04-21 06:47 |
|
|
Loop modelling, by berk » Sat, 2013-06-08 08:29 |
2 |
2,523 |
by berk Mon, 2014-04-21 06:48 |
|
|
How to generate symmdef file for translational symmetry only? by pitmand » Thu, 2015-05-14 11:34 |
2 |
2,724 |
by pitmand Tue, 2015-05-26 12:20 |
|
|
Rigid Body & Flexible Minimization by Hanieh » Thu, 2014-02-06 12:37 |
2 |
3,550 |
by Hanieh Fri, 2014-02-28 12:43 |
|
|
Error reading new residue .param file by mgrom92 » Tue, 2016-03-22 12:54 |
2 |
3,969 |
by mgrom92 Wed, 2016-03-23 16:45 |
|
|
GeneralizedKIC disulfide closure by Ken » Tue, 2022-08-16 13:32 |
2 |
445 |
by Ken Wed, 2022-08-17 08:04 |
|
|
Rosetta numbering with missing occupancies by ShaneOConnor » Fri, 2011-10-07 16:18 |
2 |
3,287 |
by ShaneOConnor Mon, 2014-04-21 06:47 |
|
|
RASREC - finding lowest energy structure by Lati » Fri, 2015-11-20 03:08 |
2 |
2,477 |
by Lati Tue, 2016-01-12 13:28 |
Log in to post new content in the forum.
