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Rosetta 3 - Applications

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Normal topic Rosetta RNA denovo huge memory usage (probable memory leak)
by cdegut » Mon, 2017-10-30 16:41
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3,031 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
1,915 by smlewis
Mon, 2019-09-23 11:42
Normal topic extract silent error - tag mismatch
by shrutikhare » Thu, 2014-04-03 00:13
5
5,698 by rmoretti
Mon, 2014-04-21 10:47
Normal topic Using MoveMap within Relax Application?
by m_grisewood » Mon, 2012-08-13 12:21
5
5,853 by m_grisewood
Mon, 2014-04-21 06:47
Normal topic Error with the mpi version of simple_cycpep_predict
by Florent Langenfeld » Wed, 2020-02-05 05:16
5
1,883 by vmulligan
Fri, 2020-04-10 02:54
Normal topic Snugdock_input
by luicui » Wed, 2017-01-18 16:48
5
3,139 by smlewis
Fri, 2017-01-20 08:14
Normal topic How to choose designed antibody
by Sunyp_IM » Wed, 2020-06-24 10:06
5
1,791 by jadolfbr
Fri, 2020-07-24 07:24
Normal topic rosetta protein protein docking start up
by vk » Fri, 2011-06-24 09:01
5
5,692 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaCM -weights, fragments and relax
by jsv » Tue, 2017-05-09 10:20
5
3,736 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
3,520 by rmoretti
Mon, 2018-11-12 14:31
Normal topic Cartesian-space refinement
by sjyang7 » Wed, 2017-05-31 19:34
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4,063 by sjyang7
Sat, 2017-06-03 06:09
Normal topic symmetric docking and constraints
by ytao » Thu, 2013-05-02 12:08
5
6,404 by attesor
Wed, 2015-10-21 13:53
Normal topic cyclization_type flag in simple_cycpep_predict
by Florent Langenfeld » Thu, 2018-01-04 09:22
5
3,005 by Florent Langenfeld
Tue, 2018-03-27 11:44
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
4,294 by smlewis
Mon, 2014-04-21 06:47
Normal topic Enzdes: increase weight of energy term for steric clashes with ligand
by eyong123 » Wed, 2015-03-25 09:12
5
4,842 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
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4,550 by Ryhon Wang
Mon, 2016-01-04 19:59
Normal topic RosettaVIP: ERROR: seqpos <= size()
by Anonymous » Thu, 2012-07-26 07:30
5
5,436 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Rosetta ScriptsFeatures Reporter issue
by David Weis » Sun, 2017-03-12 08:19
5
3,453 by David Weis
Mon, 2017-03-13 10:59
Normal topic domain:domain fusion
by felipet » Thu, 2017-06-15 13:13
5
3,883 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
1,673 by jadolfbr
Wed, 2020-05-06 11:37
Normal topic PDB format for RosettaDNA
by brspurri » Thu, 2013-05-30 11:21
5
5,406 by brspurri
Mon, 2014-04-21 06:47
Normal topic ddg dG_separate
by gw » Wed, 2012-08-22 11:25
5
4,735 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaScripts LinkResidues
by Yero » Fri, 2019-05-17 05:26
5
2,743 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
7,645 by a-eatemadi@razi...
Sun, 2017-08-06 03:49
Normal topic Rosetta dock irmsd
by Pernille » Sun, 2015-04-26 13:51
5
5,518 by rmoretti
Mon, 2015-10-12 15:10
Normal topic flexpep docking problem
by michael_luntan » Mon, 2011-04-18 17:15
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4,545 by michael_luntan
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
4,066 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
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2,906 by dfcoelho
Tue, 2018-10-16 09:05
Normal topic conway2016 correction on beta-nov15?
by attesor » Wed, 2017-03-15 05:26
5
3,170 by attesor
Thu, 2017-03-16 01:21
Normal topic null mutation with ddg_monomer
by fred » Fri, 2012-05-11 07:16
4
3,256 by fred
Mon, 2014-04-21 06:47
Normal topic favor native residue in fixBB design
by ast » Mon, 2012-12-10 06:00
4
3,769 by smlewis
Mon, 2014-04-21 06:47
Normal topic "OSError: [Errno 2]” in “clustering.py”
by lanselibai » Sat, 2014-10-11 14:30
4
6,339 by lanselibai
Fri, 2014-10-17 05:10
Normal topic flexpep docking problem-----How to do with phosphorylation peptide?
by MajorID » Thu, 2011-06-02 00:37
4
5,060 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Template/Input length mismatch error during RosettaCM
by marinok » Mon, 2020-05-04 13:12
4
1,456 by marinok
Mon, 2020-05-11 12:48
Normal topic Clustering issue
by Loki01 » Thu, 2018-03-29 10:16
4
2,300 by Loki01
Thu, 2018-04-12 08:28
Normal topic ligand_docking tutorial help: do crystal_complex.pdb files need to be prepped before using with <InterfaceScoreCalculator>
by DGR95 » Fri, 2021-04-16 19:26
4
932 by DGR95
Wed, 2021-04-28 16:13
Normal topic ligand dock question
by sacch » Sun, 2012-05-20 19:49
4
3,589 by sacch
Mon, 2014-04-21 06:47
Normal topic homology modelling with DNA
by zadie1118 » Fri, 2012-09-28 06:35
4
4,739 by rmoretti
Mon, 2014-04-21 06:47
Normal topic fa_plane enregy term in scoring weights
by ytao » Fri, 2012-11-30 20:25
4
3,966 by smlewis
Mon, 2014-04-21 06:47
Normal topic Abinitio.relax problem on centos
by krlitros87 » Wed, 2014-09-24 11:27
4
4,778 by jadolfbr
Tue, 2014-10-07 16:05
Normal topic Relax with protein+complex
by Prasanth Kumar » Wed, 2013-05-08 23:16
4
4,539 by Prasanth Kumar
Mon, 2014-04-21 06:47
Normal topic RosettaDesign error with Option file open failed
by xingqing326 » Sun, 2020-04-19 01:56
4
2,059 by xingqing326
Tue, 2020-04-21 19:11
Normal topic Error while running RosettaLigand
by Ryhon Wang » Tue, 2013-07-30 02:51
4
4,222 by Ryhon Wang
Mon, 2014-04-21 06:48
Normal topic extract_pdbs fails to open silent file when -auto_setup_metals enabled
by attesor » Thu, 2015-01-15 03:22
4
3,996 by attesor
Tue, 2015-01-27 02:20
Normal topic Score Functions for Ligand-protein Docking
by ziruiw » Sun, 2021-04-25 13:41
4
1,141 by ziruiw
Fri, 2021-04-30 12:01
Normal topic Rebuilding the structure from unknown residues
by sushreet » Mon, 2016-06-27 09:32
4
3,878 by rmoretti
Tue, 2016-07-12 09:35
Normal topic rosetta backrub
by ladimafakher » Thu, 2018-10-04 08:01
4
2,287 by ladimafakher
Thu, 2018-11-01 03:47
Normal topic "Problem in calculating overlap between atoms" error occurred in Point Mutant Scan application
by xfliu » Thu, 2012-06-21 09:07
4
4,097 by smlewis
Mon, 2014-04-21 06:47
Normal topic Segmentation Fault
by ajaniharesh » Fri, 2019-03-29 11:21
4
3,868 by ajaniharesh
Thu, 2019-04-04 07:07
Normal topic Sequence design with mixed fixbb-relax protocol
by kszczepaniak » Thu, 2013-10-03 08:11
4
4,540 by fede
Wed, 2020-09-23 11:24
Normal topic Warning messages in Interface analyzer output
by Pernille » Wed, 2015-03-25 00:53
4
3,525 by rmoretti
Tue, 2015-03-31 08:20
Normal topic Coverage of sequence space?
by johnnytam100 » Sun, 2019-04-21 23:25
4
2,322 by johnnytam100
Thu, 2019-04-25 19:28
Normal topic Thread target sequence
by duz » Thu, 2021-04-01 10:09
4
908 by duz
Mon, 2021-05-03 07:50
Normal topic SymDock for docking only the ligand?
by ast » Mon, 2013-06-17 09:53
4
4,433 by rmoretti
Mon, 2014-04-21 06:48
Normal topic select_best_unique_ligand_poses - Ligand docking
by subha » Thu, 2018-04-19 10:36
4
2,259 by subha
Fri, 2018-04-20 12:49
Normal topic antibody_numbering_converter cannot recognize the IMGT scheme
by cryosky » Sat, 2020-02-29 23:12
4
1,698 by jadolfbr
Sun, 2020-03-01 14:54
Normal topic rosetta3.4 fragment file problem
by David Hoover » Wed, 2012-05-16 14:42
4
3,366 by dgront
Mon, 2014-04-21 06:47
Normal topic Error when running Remodel with EnzDes constraint file to extend c-terminal
by Jeffrey_Chen » Thu, 2017-01-19 06:20
4
3,268 by dfcoelho
Tue, 2017-10-17 11:52
Normal topic fixbb and ncaa's
by jarek » Thu, 2012-11-08 04:55
4
3,771 by jcminerlanl
Thu, 2017-12-21 10:13
Normal topic Error while reading in silent file
by rweisse » Mon, 2015-04-20 00:31
4
4,316 by rmoretti
Thu, 2015-04-30 16:46
Normal topic conformational sampling of multi domain protein
by dhirajks » Tue, 2017-07-04 11:20
4
2,693 by jrporter
Wed, 2017-07-05 06:30
Normal topic Re: Glutamic acid protonation
by bharat_46010 » Fri, 2017-02-10 03:08
4
3,541 by rmoretti
Mon, 2017-02-20 08:09
Normal topic ddg with ligands
by bhaines1 » Mon, 2011-12-05 14:32
4
4,191 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problem readin .ccp4 map file
by jljbbc » Tue, 2011-05-03 11:29
4
4,594 by jljbbc
Mon, 2014-04-21 06:47
Normal topic Positive scores with SymmDock in helical symmetry
by kxiao » Tue, 2014-02-11 07:37
4
3,649 by kxiao
Thu, 2014-06-05 08:37
Normal topic Changing scoring function for fixbb protocol
by mdyini » Sat, 2012-07-07 18:43
4
3,331 by mdyini
Mon, 2014-04-21 06:47
Normal topic mr_protocols with symmetry and ligand
by jhm13c » Mon, 2017-02-27 11:59
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2,692 by jhm13c
Thu, 2017-03-02 12:01
Normal topic When using "screening job files" in small molecule-docking I get: Residue type already exists in the cache Error
by Martin Floor » Thu, 2020-09-17 06:01
4
1,411 by Martin Floor
Tue, 2020-09-22 00:48
Normal topic How to estimate the effect of a mutation on the binding energy?
by ltrabuco » Tue, 2011-02-15 08:02
4
4,380 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic ddg_monomer: what is the meaning of "total score" and "score"?
by lanselibai » Tue, 2015-01-13 14:49
4
5,495 by rmoretti
Thu, 2015-04-16 11:23
Normal topic RosettaAntibody3 is failing with "Error: no input sequences were specified!"
by brspurri » Sun, 2020-08-16 16:16
4
1,484 by brspurri
Tue, 2020-08-18 09:57
Normal topic Error while running "make_fragments.pl".....[blastpgp] ERROR: Arguments must start with '-'
by AG88 » Thu, 2011-11-03 01:25
4
6,502 by weitzner
Mon, 2014-04-21 06:47
Normal topic ddg_monomer and membrane proteins
by afmo » Tue, 2014-05-20 02:37
4
4,692 by afmo
Thu, 2014-05-22 01:19
Normal topic side chain repacking error
by malkeet.singh » Thu, 2017-12-07 04:49
4
2,727 by smlewis
Wed, 2017-12-13 09:54
Normal topic Any backrub expert?
by johnnytam100 » Fri, 2019-03-01 01:58
4
2,281 by johnnytam100
Sun, 2019-03-03 23:42
Normal topic Rosetta antibody- modeling in the presense of an antigen
by agctomer » Mon, 2021-02-01 03:19
4
1,041 by nannemdp
Wed, 2021-02-03 08:52
Normal topic ddg_monomer: How the ddG is actually calculated based on the 50 trajectories? What scorefunction is used?
by lanselibai » Tue, 2015-02-24 02:38
4
5,066 by lanselibai
Sun, 2015-03-01 15:00
Normal topic rosetta.script segmentation fault
by felipet » Wed, 2013-10-02 10:41
4
5,037 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic How to run simulations with non-canonical amino acids?
by Denise » Thu, 2017-06-08 07:50
4
2,961 by Denise
Thu, 2017-06-15 04:26
Normal topic Multiple ligands in enzyme design application
by yogeshkd » Mon, 2013-02-11 10:13
4
4,346 by yogeshkd
Mon, 2014-04-21 06:47
Normal topic Single Strand DNA (ssDNA) 3D structure prediction
by mkoohim » Fri, 2012-04-06 00:52
4
12,639 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaCM: An internal error has occurred when "Running the Hybridize mover"
by haom » Mon, 2020-06-15 05:56
4
1,301 by haom
Tue, 2020-06-16 05:55
Normal topic Pepspec Errors running 3.4
by rrphenix » Tue, 2013-05-28 12:08
4
3,462 by rmoretti
Mon, 2014-04-21 06:47
Normal topic How to output all iteration structures from ddg_monomer?
by cossio » Fri, 2014-12-26 13:40
4
3,815 by cossio
Mon, 2015-01-19 07:10
Normal topic Filter for fixed-bb design using RosettaScript?
by chrisHKL » Fri, 2020-02-28 19:47
4
1,433 by vmulligan
Mon, 2020-03-02 13:40
Normal topic Can I assume the outputs from different runs are from a same batch?
by lanselibai » Mon, 2014-11-03 06:34
4
3,643 by lanselibai
Mon, 2014-11-03 13:15
Normal topic antibody.linuxgccrelease- output models don't have the same sequence as the input fasta
by agctomer » Thu, 2021-01-21 15:35
4
1,092 by agctomer
Sun, 2021-01-31 01:06
Normal topic Structure prediction using true distance and angle constraint
by maruhuang » Wed, 2019-08-21 02:29
4
1,536 by maruhuang
Thu, 2019-09-26 18:52
Normal topic Dimer of dimers
by smiruthi » Fri, 2011-04-15 10:41
4
5,871 by IAndre
Mon, 2014-04-21 06:47
Normal topic make_rot_lib issue
by jarek » Thu, 2013-04-11 08:21
4
4,019 by smlewis
Mon, 2014-04-21 06:47
Normal topic minirosetta: weird behavior
by fred » Wed, 2014-01-22 05:57
4
4,207 by fred
Mon, 2014-04-21 06:48
Normal topic Specifying resfile in rosetta scripts
by johnnytam100 » Mon, 2019-03-18 02:19
4
2,438 by rmoretti
Fri, 2019-03-29 09:30
Normal topic building a protein-dna homology model via cm_rosetta
by y_atsmonraz » Wed, 2021-10-20 23:11
4
501 by y_atsmonraz
Tue, 2021-11-02 01:47
Normal topic RNA structure prediction
by emaghdam » Sat, 2014-02-08 01:30
4
4,620 by rmoretti
Mon, 2014-02-24 09:12
Normal topic How to specify only design surface residues and loops by RosettaScripts?
by johnnytam100 » Sun, 2019-04-07 21:47
4
1,886 by johnnytam100
Wed, 2019-04-10 02:48
Normal topic Unable to understand fragment picking tutorial points.
by Danielsebas » Thu, 2019-09-05 03:44
4
1,844 by danpf
Fri, 2019-09-06 11:29
Normal topic Relaxed proteins show higher clash score in molprobity results.
by Wang Zhe » Fri, 2021-12-03 04:32
4
567 by smlewis
Wed, 2021-12-08 13:02
Normal topic Docking Prepack protocol working or not ?
by MJG » Mon, 2017-04-03 08:02
4
2,790 by MJG
Tue, 2017-04-04 23:59
Normal topic Backrub Params Files
by protos_heis » Tue, 2012-09-18 06:15
4
4,178 by protos_heis
Mon, 2014-04-21 06:47
Normal topic Antibody modeling
by Maryam_tabasinezhad » Fri, 2015-09-04 11:00
4
3,982 by rmoretti
Wed, 2015-09-09 12:08
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