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Rosetta 3 - Applications

Topic / Topic starter Repliessort descending Views Last post
Normal topic How to use MHC Epitope energy (mhc_epitope) to deimmunize a protein structure?
by Sunyp_IM » Sun, 2020-11-08 08:07
5
3,137 by Brahm Yachnin
Wed, 2020-11-18 17:21
Normal topic Conformers in EnzDes
by JorickF » Fri, 2015-03-06 04:41
5
7,197 by rmoretti
Tue, 2015-03-31 08:56
Normal topic RosettaAntibodyDesign: How can I run the protocol without allowing design?
by brspurri » Tue, 2020-05-26 08:12
5
2,947 by brspurri
Wed, 2020-06-03 13:20
Normal topic How to only constructure the tail conformation when using "FloppyTail.linuxgccrelease"?
by lanselibai » Mon, 2014-10-13 10:26
5
5,595 by lanselibai
Wed, 2014-10-15 03:52
Normal topic docking energies - deltadeltaG calculation
by ast » Fri, 2013-07-19 07:30
5
9,844 by rmoretti
Mon, 2014-04-21 06:48
Normal topic RosettaCM Tutorials
by smathersc » Wed, 2017-01-11 15:59
5
4,832 by rmoretti
Thu, 2017-01-19 09:11
Normal topic relax.linuxgccrelease in multiple processors
by jpfuenzalidawx » Thu, 2021-01-14 14:07
5
2,985 by jadolfbr
Fri, 2021-01-15 08:06
Normal topic Rna Denovo
by helderveras » Wed, 2020-05-06 08:40
5
3,057 by everyday847
Wed, 2020-05-20 08:52
Normal topic rna structure prediction
by cbala » Thu, 2011-04-14 07:42
5
5,896 by mkoohim
Mon, 2014-04-21 06:47
Normal topic how to find help informations on rosetta_scripts in rosetta3.10
by xinmiaohe » Mon, 2019-08-26 14:48
5
3,151 by xinmiaohe
Tue, 2019-08-27 08:37
Normal topic symmetric docking and constraints
by ytao » Thu, 2013-05-02 12:08
5
7,708 by attesor
Wed, 2015-10-21 13:53
Normal topic Error during single state design
by sujigeorge1979 » Sat, 2020-01-18 00:37
5
5,182 by rmoretti
Thu, 2020-01-30 15:42
Normal topic Rosetta RNA denovo huge memory usage (probable memory leak)
by cdegut » Mon, 2017-10-30 16:41
5
4,302 by cdegut
Fri, 2017-11-03 05:50
Normal topic Rosetta ab initio run gives 0.00 RMSD for generated 2000 models? (run still in progress)
by Danielsebas » Mon, 2019-09-23 03:24
5
3,210 by smlewis
Mon, 2019-09-23 11:42
Normal topic extract silent error - tag mismatch
by shrutikhare » Thu, 2014-04-03 00:13
5
7,020 by rmoretti
Mon, 2014-04-21 10:47
Normal topic Error with the mpi version of simple_cycpep_predict
by Florent Langenfeld » Wed, 2020-02-05 05:16
5
3,225 by vmulligan
Fri, 2020-04-10 02:54
Normal topic Snugdock_input
by luicui » Wed, 2017-01-18 16:48
5
4,374 by smlewis
Fri, 2017-01-20 08:14
Normal topic PDB format for RosettaDNA
by brspurri » Thu, 2013-05-30 11:21
5
6,480 by brspurri
Mon, 2014-04-21 06:47
Normal topic RosettaCM -weights, fragments and relax
by jsv » Tue, 2017-05-09 10:20
5
5,016 by rmoretti
Thu, 2017-06-01 08:52
Normal topic Ligand Docking with Rosetta Scripts memory problem
by Swillard » Thu, 2017-08-17 14:59
5
4,880 by rmoretti
Mon, 2018-11-12 14:31
Normal topic Using MoveMap within Relax Application?
by m_grisewood » Mon, 2012-08-13 12:21
5
7,172 by m_grisewood
Mon, 2014-04-21 06:47
Normal topic Cartesian-space refinement
by sjyang7 » Wed, 2017-05-31 19:34
5
5,669 by sjyang7
Sat, 2017-06-03 06:09
Normal topic cyclization_type flag in simple_cycpep_predict
by Florent Langenfeld » Thu, 2018-01-04 09:22
5
4,713 by Florent Langenfeld
Tue, 2018-03-27 11:44
Normal topic Enzdes: increase weight of energy term for steric clashes with ligand
by eyong123 » Wed, 2015-03-25 09:12
5
6,116 by rmoretti
Fri, 2015-04-24 12:02
Normal topic RosettaLigand: How to score native pose in protein-ligand docking experiment?
by Ryhon Wang » Tue, 2015-11-10 01:30
5
5,804 by Ryhon Wang
Mon, 2016-01-04 19:59
Normal topic Rosetta ScriptsFeatures Reporter issue
by David Weis » Sun, 2017-03-12 08:19
5
4,731 by David Weis
Mon, 2017-03-13 10:59
Normal topic Memory Leak: Relax Density MPI RAM overusage kills process
by mmfarrugia » Sun, 2023-12-31 12:02
5
431 by mmfarrugia
Fri, 2024-01-12 10:35
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
5,359 by smlewis
Mon, 2014-04-21 06:47
Normal topic domain:domain fusion
by felipet » Thu, 2017-06-15 13:13
5
5,506 by felipet
Fri, 2017-06-16 11:42
Normal topic Can the Rosetta Antibody Design (RAbD) protocol incorporate glycans?
by ccottrell » Tue, 2020-05-05 20:30
5
2,965 by jadolfbr
Wed, 2020-05-06 11:37
Normal topic RosettaScripts LinkResidues
by Yero » Fri, 2019-05-17 05:26
5
4,181 by Yero
Thu, 2019-07-18 01:39
Normal topic Parse error while reading in XML file in ROSETTA Scripts
by rweisse » Fri, 2014-08-29 03:24
5
9,483 by a-eatemadi@razi...
Sun, 2017-08-06 03:49
Normal topic Rosetta dock irmsd
by Pernille » Sun, 2015-04-26 13:51
5
6,992 by rmoretti
Mon, 2015-10-12 15:10
Normal topic snugdock(sequence position requested was greater than the number of residues in the pose)
by lei » Thu, 2023-01-12 01:40
5
2,493 by lei
Fri, 2023-01-20 08:11
Normal topic RosettaVIP: ERROR: seqpos <= size()
by Anonymous » Thu, 2012-07-26 07:30
5
6,594 by Anonymous
Mon, 2014-04-21 06:47
Normal topic ddg dG_separate
by gw » Wed, 2012-08-22 11:25
5
6,171 by smlewis
Mon, 2014-04-21 06:47
Normal topic [TopologyBroker Exception]: BBTorsion at pos 468unitialized...unclaimed
by tevang » Wed, 2013-04-10 15:07
5
4,879 by rmoretti
Mon, 2014-04-21 06:47
Normal topic too many constraints result in no output pose
by Yao Wu » Sun, 2012-11-18 23:45
5
6,143 by smlewis
Mon, 2014-04-21 06:47
Normal topic extract_pdb application parse error with silent file
by staciekim » Tue, 2017-08-22 12:39
5
5,743 by rmoretti
Thu, 2017-08-24 08:19
Normal topic Local docking: "manually place the two proteins facing each other" ?
by mdeklotz » Fri, 2018-07-20 10:24
5
4,662 by dfcoelho
Tue, 2018-10-16 09:05
Normal topic conway2016 correction on beta-nov15?
by attesor » Wed, 2017-03-15 05:26
5
4,455 by attesor
Thu, 2017-03-16 01:21
Normal topic -score_app:linmin flag not working
by fglaser » Tue, 2011-03-01 06:04
5
5,544 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to concatenate the 3-mer and 9-mer files for RosettaCM?
by lanselibai » Fri, 2020-05-08 05:38
5
3,313 by danpf
Tue, 2020-05-12 10:58
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
3,129 by Astghik
Thu, 2020-10-15 00:48
Normal topic Is there a way to restrict memory usage of ddg_monomer?
by cossio » Fri, 2015-01-30 14:35
5
5,236 by rmoretti
Mon, 2015-02-09 12:04
Normal topic how to do alanine scanning
by xinmiaohe » Mon, 2019-08-26 17:40
5
5,154 by xinmiaohe
Fri, 2019-10-04 08:54
Normal topic Steric clashes in RNA minimization
by brianmlee » Tue, 2014-11-18 18:29
5
6,141 by brianmlee
Mon, 2014-11-24 19:40
Normal topic Symmetric Minimization
by aroop » Mon, 2012-12-17 11:45
5
4,688 by aroop
Mon, 2014-04-21 06:47
Normal topic How to minimize the decoys obtained from backrub?
by Vedasheersh » Wed, 2017-06-14 10:26
5
4,267 by SenyorDrew
Fri, 2017-06-30 09:47
Normal topic ab initio protein prediction using homologs
by justin » Mon, 2012-02-13 07:52
5
5,772 by justin
Mon, 2014-04-21 06:47
Normal topic trRosetta protocol Segmentation Fault
by nc-ring » Wed, 2021-04-28 11:57
5
2,729 by nc-ring
Tue, 2021-05-04 12:26
Normal topic rosetta app
by MA » Wed, 2017-07-05 06:52
5
4,052 by smlewis
Tue, 2017-07-11 07:53
Normal topic problem creating lips4 file using run_lips.pl
by adva » Sun, 2015-02-15 06:22
5
7,574 by linucks
Mon, 2016-06-20 12:02
Normal topic Error with talaris2014.wts, which leads to a garbade scorefunction in loop modelling for protein-protein docking
by Corvin » Wed, 2019-06-19 08:40
5
4,117 by rmoretti
Tue, 2019-07-09 10:13
Normal topic AbinitioRelax with native fragments
by ks » Mon, 2016-09-05 03:03
5
5,370 by ks
Mon, 2016-09-12 03:14
Normal topic RosettaCM Biological Assembly
by jrcf » Mon, 2015-10-26 11:01
5
7,365 by rmoretti
Tue, 2015-11-24 15:30
Normal topic matdes_design: ERROR]EXCN_utility_exit has been thrown from: src/core/io/silent/SilentFileData.cc line: 302
by siciliu » Fri, 2014-03-21 17:51
5
6,303 by siciliu
Thu, 2014-04-10 09:50
Normal topic RosettaMP: issue with generating .lips4 file
by ksy141 » Mon, 2019-01-21 17:17
5
3,530 by noahC_noahDo
Fri, 2020-11-20 11:29
Normal topic rosetta protein protein docking start up
by vk » Fri, 2011-06-24 09:01
5
7,047 by smlewis
Mon, 2014-04-21 06:47
Normal topic ndruns and nstruct in fixbb
by Anonymous » Tue, 2012-08-07 01:52
5
6,330 by Anonymous
Mon, 2014-04-21 06:47
Normal topic ddg_monomer conformational search...
by yperez » Wed, 2012-05-09 11:10
5
5,004 by yperez
Mon, 2014-04-21 06:47
Normal topic Enzyme design with variable CST blocks possible?
by petrikigor » Thu, 2011-10-06 11:24
6
7,207 by petrikigor
Mon, 2014-04-21 06:47
Normal topic mover "RepackMinimize" does not support chains > 2?
by jarod » Mon, 2013-05-20 02:17
6
7,546 by jarod
Mon, 2014-04-21 06:47
Normal topic Docking with constraints
by ytao » Tue, 2013-04-02 09:45
6
8,021 by smlewis
Mon, 2014-04-21 06:47
Normal topic Line search failed even after resetting Hessian
by Loki01 » Wed, 2017-12-13 16:52
6
5,963 by Loki01
Thu, 2018-02-15 13:54
Normal topic Is Biopython required to run pdb_renumber.py?
by ljjjxay » Wed, 2023-11-22 20:00
6
657 by ljjjxay
Wed, 2023-12-06 19:24
Normal topic Missing "Bio.PDB" module when running "remove_loop_coords.py"
by lanselibai » Mon, 2014-09-29 04:34
6
10,260 by lanselibai
Wed, 2014-10-01 02:13
Normal topic Incorrect Jump being set in RosettaScripts docking mover
by weehee » Fri, 2012-06-08 10:23
6
7,669 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Comparative modeling stops with "no more batches to process... " / no output
by eskici » Tue, 2012-08-28 12:13
6
6,333 by eskici
Mon, 2014-04-21 06:47
Normal topic Multistate design output
by tong » Wed, 2018-06-20 00:21
6
4,102 by tong
Sun, 2018-06-24 23:30
Normal topic Cannot get a negative score after relax
by kxiao » Tue, 2014-01-28 22:28
6
7,878 by rmoretti
Mon, 2014-04-21 06:48
Normal topic "sparks failed" error when running "make_fragments.pl"?
by Danielsebas » Tue, 2019-09-03 03:43
6
4,115 by Jacob_Verburgt
Tue, 2020-03-10 14:39
Normal topic Abinitio (3.4) Error: no fragment to compute secondary structure
by skovacs » Tue, 2012-09-18 13:49
6
7,572 by skovacs
Mon, 2014-04-21 06:47
Normal topic FloppyTail :How to specify range of design(mutation)
by syoifczeri » Mon, 2015-11-02 04:14
6
6,488 by syoifczeri
Sat, 2015-11-07 21:42
Normal topic Distinctions between InterfaceAnalyzer and RosettaScript
by achambe » Wed, 2015-06-17 10:14
6
8,404 by rmoretti
Wed, 2015-09-02 12:43
Normal topic ligand docking, how to combine some silent.out files into a silent_all.out file
by Ryhon Wang » Fri, 2013-12-06 01:53
6
7,344 by rmoretti
Wed, 2017-01-11 12:53
Normal topic How to model missing residues on a protein from multiple PDB files?
by cossio » Fri, 2015-08-21 07:18
6
13,244 by rmoretti
Fri, 2015-09-11 13:27
Normal topic terminal amino acids of gap has incomplete valency
by malkeet.singh » Wed, 2017-11-29 05:20
6
4,542 by rmoretti
Fri, 2017-12-01 12:05
Normal topic How to choose designed antibody
by Sunyp_IM » Wed, 2020-06-24 10:06
6
4,153 by chandana
Tue, 2022-08-09 20:27
Normal topic Problem with hotspot constraints.
by jarek » Wed, 2012-10-17 03:22
6
5,837 by xfliu
Mon, 2014-04-21 06:47
Normal topic How to define pi-pi stacking in cst file?
by lzx32 » Mon, 2011-07-04 23:47
6
8,163 by lzx32
Mon, 2014-04-21 06:47
Normal topic protein docking failed
by albumns » Thu, 2012-11-08 02:59
6
6,212 by rmoretti
Mon, 2014-04-21 06:47
Normal topic the ddg of mutant is same as the wt
by deepanshuiitb » Wed, 2015-03-04 11:56
6
6,736 by jadolfbr
Tue, 2015-04-07 10:50
Normal topic ab inito memberane(error in alignblast.pl)
by kingljy » Tue, 2011-05-03 23:41
6
7,105 by karthishanmugam
Mon, 2014-04-21 06:47
Normal topic symmetric design in the presence of a nonsymmetric ligand
by msardejani » Fri, 2016-09-30 15:17
6
6,198 by msardejani
Sat, 2016-10-01 12:55
Normal topic Make error during installation of updated ncbi-blast-2.9.0+-src plus error with nr-database
by Corvin » Tue, 2019-10-01 02:04
6
6,213 by Corvin
Tue, 2019-10-15 01:12
Normal topic Loop modeling - the appropriate way to model a peptide insertion?
by xding » Thu, 2018-08-02 15:30
6
4,798 by smlewis
Wed, 2018-08-08 15:48
Normal topic Help with enzyme design
by lzx32 » Fri, 2011-04-08 22:29
6
6,560 by lzx32
Mon, 2014-04-21 06:47
Normal topic docking in rosetta 3.3
by Ammu » Thu, 2012-03-15 12:03
6
6,089 by smlewis
Mon, 2014-04-21 06:47
Normal topic CS-HM-Rosetta
by pwurm » Thu, 2013-03-07 12:56
6
7,153 by Marius1987
Fri, 2016-02-05 07:20
Normal topic the flexpepdock refinement and ab-initio
by tfliu » Mon, 2013-12-23 19:17
6
6,452 by tfliu
Mon, 2014-04-21 06:48
Normal topic Error src/core/scoring/MembraneTopology.cc line: 139
by Daniel Hall » Thu, 2017-07-13 04:58
6
5,905 by rmoretti
Tue, 2017-07-18 09:00
Normal topic Translate mover chain X doesnot exist.
by surya » Thu, 2020-07-09 08:36
6
3,353 by rmoretti
Tue, 2020-07-14 10:54
Normal topic Abinitio doesn't run but does not give output or error
by Irving » Fri, 2016-10-28 10:04
6
5,841 by rmoretti
Mon, 2017-01-23 08:52
Normal topic Relax a structure with >1 copy of a modified residue fails [Solved]
by franfdez » Wed, 2012-02-08 00:47
6
6,475 by franfdez
Mon, 2014-04-21 06:47
Normal topic jd2 quits before reaching -nstruct # in roseta_scripts.mpi.linuxgccrelease
by fradom » Mon, 2017-11-27 02:55
6
4,933 by fradom
Tue, 2017-12-05 01:52
Normal topic fragment_picker:[ ERROR ] UtilityExitException ERROR: can't open file: $ROSETTA/tools/fragment_tools/vall.jul19.2011.gz
by yueyuedake » Wed, 2023-07-12 03:36
6
947 by yueyuedake
Sun, 2023-07-16 19:17
Normal topic RosettaLigand - strange score behavior
by Gerdes » Mon, 2014-02-03 02:24
6
6,936 by Gerdes
Fri, 2014-02-07 06:48
Normal topic Can't generate a cst file to use with ddg_monomer application
by ctqwong » Sat, 2021-03-13 03:53
6
2,974 by ctqwong
Thu, 2021-03-18 02:04
Normal topic Can I believe the antibody design result?
by Sunyp_IM » Mon, 2020-11-30 03:29
6
3,178 by jadolfbr
Sun, 2020-12-06 17:41
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