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Rosetta 3 - General

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:16
0
7,990 by admin
Fri, 2015-09-04 16:17
Normal topic How to define the surface (???.surf) for surface_docking?
by Anpu » Thu, 2018-09-27 07:34
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1,090 by Anpu
Thu, 2018-09-27 23:36
Normal topic protein location change during Docking protocol
by Hyun » Tue, 2022-03-29 19:53
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545 by Hyun
Tue, 2022-03-29 19:53
Normal topic Error about using BuildDeNovoBackboneMover
by ng98 » Wed, 2024-05-29 01:47
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130 by ng98
Wed, 2024-05-29 01:47
Normal topic protein-protein docking
by LUOD » Thu, 2023-11-02 18:23
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313 by LUOD
Thu, 2023-11-02 18:25
Normal topic Rigidifying ligand
by Daniel_Levin » Sun, 2024-02-18 12:10
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354 by Daniel_Levin
Sun, 2024-02-18 12:10
Normal topic crashed when loading RDC data
by yangshen12 » Fri, 2018-10-26 12:34
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1,113 by yangshen12
Fri, 2018-10-26 12:34
Normal topic Any general way to generate .params file for beta and gamma NCAA?
by wwwmrzkwww » Wed, 2023-04-26 12:35
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452 by wwwmrzkwww
Wed, 2023-04-26 12:35
Normal topic Prepacking crashing using metalloprotein
by mb0261 » Tue, 2022-12-06 10:16
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643 by mb0261
Tue, 2022-12-06 10:16
Normal topic Changing amino acid profile while keeping the backbone conformation between 2 protein structures (need help)
by seamoon » Wed, 2023-05-24 07:46
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420 by seamoon
Wed, 2023-05-24 07:46
Normal topic Error on rna_denovo_setup.py
by zahra_AZ » Mon, 2020-11-09 02:23
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1,071 by zahra_AZ
Mon, 2020-11-09 02:23
Normal topic sam.predict-2nd for make_fragments.pl script
by sumukh21 » Tue, 2011-02-22 17:40
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1,635 by sumukh21
Mon, 2014-04-21 06:47
Normal topic Webinar?
by IgaK » Thu, 2009-11-19 03:26
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1,606 by IgaK
Mon, 2014-04-21 06:47
Normal topic RosettaDesign improvements
by ac.research » Mon, 2018-05-14 08:27
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1,177 by ac.research
Mon, 2018-05-14 08:27
Normal topic shockingly low fragment diversity ___nnmake failed
by anusmita_sahoo » Wed, 2010-03-10 21:15
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1,550 by anusmita_sahoo
Mon, 2014-04-21 06:47
Normal topic [dev] examples for implementing setup_for_packing, prepare_rotamers_for_packing?
by ipetrik_ambry » Mon, 2017-10-30 17:03
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1,143 by ipetrik_ambry
Mon, 2017-10-30 17:03
Normal topic Error in H3_modeling_scores.fasc file from antibody_H3 program
by Brian Wiley » Sat, 2023-02-04 23:41
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473 by Brian Wiley
Sat, 2023-02-04 23:43
Normal topic Rosetta remodelling - how to change the added residue type instead of just VAL
by xuezhi » Wed, 2023-02-15 14:00
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505 by xuezhi
Wed, 2023-02-15 14:00
Normal topic How to generate a symmetry definition file for octahedral symmetry?
by Anonymous » Wed, 2012-08-15 05:20
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2,550 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Enzyme design gets 0 hit
by cryosky » Sun, 2021-09-26 13:24
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849 by cryosky
Sun, 2021-09-26 13:24
Normal topic Scoring Centroid Structures
by Trentage » Sun, 2010-03-28 19:21
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1,962 by Trentage
Mon, 2014-04-21 06:47
Normal topic Remodel and the depracated EMPTY NC
by matteoferla » Fri, 2021-02-26 07:12
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1,130 by matteoferla
Fri, 2021-02-26 07:12
Normal topic Loop modeling
by Robertofg » Tue, 2022-11-22 00:34
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652 by Robertofg
Tue, 2022-11-22 00:34
Normal topic Error with fragment picking
by gserci » Mon, 2024-06-17 17:37
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40 by gserci
Mon, 2024-06-17 17:37
Normal topic Running CstFileToTheozyme for Mono-Atomic Metal
by Jhreed » Fri, 2016-07-08 13:43
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1,338 by Jhreed
Fri, 2016-07-08 13:44
Normal topic Interface scores comparison
by NingNing » Tue, 2022-08-09 17:36
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542 by NingNing
Tue, 2022-08-09 17:36
Normal topic Error when running AqueousPoreFinder protocol
by mluengo » Mon, 2023-12-11 02:55
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325 by mluengo
Mon, 2023-12-11 03:13
Normal topic I made a params file generation webpage
by matteoferla » Wed, 2020-07-22 03:08
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944 by matteoferla
Wed, 2020-07-22 03:08
Normal topic Correct way to force a specific histidine tautomer
by matteoferla » Fri, 2020-04-10 02:40
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1,354 by matteoferla
Fri, 2020-04-10 02:40
Normal topic Error when using rna_denovo in TACC stampede2 HPC
by lsong2 » Thu, 2021-11-18 10:31
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720 by lsong2
Thu, 2021-11-18 10:31
Normal topic restrict PackRotamersMover
by pmit » Thu, 2018-05-03 01:48
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1,070 by pmit
Thu, 2018-05-03 01:48
Normal topic Error: Element 'RandomizeBBByRamaPrePro': This element is not expected.
by nferruz » Fri, 2020-08-28 06:04
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958 by nferruz
Fri, 2020-08-28 06:05
Normal topic GeneralizedKIC side chain closure.
by almeida85 » Mon, 2022-09-19 06:13
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646 by almeida85
Mon, 2022-09-19 07:22
Normal topic Discrepancies between Foldit fa_rep score and Rosseta jd2 score fa_rep score
by mrosam » Fri, 2024-04-19 07:57
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195 by mrosam
Fri, 2024-04-19 07:57
Normal topic BUG REPORT: MySql column protocol.protocol_id must have the AUTO_INCREMENT flag set
by pedro.guillem » Wed, 2020-05-13 18:31
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941 by pedro.guillem
Wed, 2020-06-24 04:42
Normal topic Questions about gen_apo_grids
by JasonIsaac » Sat, 2023-06-17 00:20
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405 by JasonIsaac
Sat, 2023-06-17 00:20
Normal topic Helical symmetry for cryo-EM refinement
by fmerino » Mon, 2017-10-16 04:02
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1,443 by fmerino
Mon, 2017-10-16 04:02
Normal topic mpi_MSD for antibody design
by hanzhiz » Thu, 2021-12-16 09:32
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745 by hanzhiz
Thu, 2021-12-16 09:32
Normal topic Segmentation fault with nstruct > 1
by Brian Wiley » Sun, 2023-02-12 20:46
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491 by Brian Wiley
Sun, 2023-02-12 20:46
Normal topic Error in Loop Modeling
by sayan500 » Tue, 2019-07-30 22:20
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1,545 by sayan500
Tue, 2019-07-30 22:20
Normal topic Is it impossible to use the ddg_monomer function on a non-monomeric structure?
by Wexter300 » Sat, 2024-05-25 14:16
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102 by Wexter300
Sat, 2024-05-25 14:16
Normal topic make_fragments.pl
by rlwoltz » Fri, 2019-02-01 10:31
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1,670 by rlwoltz
Fri, 2019-02-01 10:31
Normal topic Using NCAA
by ate » Sat, 2021-05-01 02:52
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1,015 by ate
Sat, 2021-05-01 02:52
Normal topic keep ATP in the kinase-peptide structure while docking
by ziqi1234 » Fri, 2017-11-10 04:04
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1,174 by ziqi1234
Fri, 2017-11-10 04:04
Normal topic Using FastSAXS Scoring Protocol
by jurkm » Tue, 2011-09-20 07:40
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1,910 by jurkm
Mon, 2014-04-21 06:47
Normal topic Ensemble file required for both partners with docking prepack protocol
by katherinemccoy » Tue, 2022-03-29 14:26
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586 by katherinemccoy
Tue, 2022-03-29 14:26
Normal topic Temperature
by mrosam » Mon, 2022-08-08 01:37
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540 by mrosam
Mon, 2022-08-08 01:37
Normal topic Questions about alanine scanning in Rosetta
by LTJ » Mon, 2020-07-06 14:13
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1,095 by LTJ
Mon, 2020-07-06 14:13
Normal topic Flex-pep-docking (ab-initio mode)
by ate » Wed, 2021-06-16 19:19
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791 by ate
Wed, 2021-06-16 19:19
Normal topic Cartesian_ddG mutfile error
by paulbo » Mon, 2024-02-05 01:25
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444 by paulbo
Mon, 2024-02-05 01:25
Normal topic possible error in make_fragments.pl and fix
by DanielK » Fri, 2012-04-27 02:23
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1,767 by DanielK
Mon, 2014-04-21 06:47
Normal topic SARS-CoV-2: call for compound predictions against protease
by matteoferla » Sun, 2020-03-22 05:29
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1,055 by matteoferla
Sun, 2020-03-22 05:29
Normal topic using full atom constraint in docking
by rohi » Thu, 2020-10-15 10:28
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1,089 by rohi
Thu, 2020-10-15 10:28
Normal topic What should I do to lower down the fa_sol scores?
by JasonIsaac » Mon, 2022-12-05 18:57
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655 by JasonIsaac
Mon, 2022-12-05 18:57
Normal topic running ROBETTA protocol for proteins >1000 aa long
by tevang » Thu, 2010-07-15 07:09
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1,605 by tevang
Mon, 2014-04-21 06:47
Normal topic Hamiltonian Exchange
by JSK » Mon, 2024-03-18 12:44
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222 by JSK
Tue, 2024-03-19 09:21
Normal topic ligand docking error
by YuFei » Wed, 2020-04-22 17:27
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1,003 by YuFei
Wed, 2020-04-22 17:27
Normal topic Intel MPI: early exit due to job process stopped.
by jackzzs » Mon, 2023-05-15 02:57
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1,392 by jackzzs
Mon, 2023-05-15 03:17
Normal topic pyRosetta problem
by exchhattu » Sun, 2010-07-25 22:25
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1,550 by exchhattu
Mon, 2014-04-21 06:47
Normal topic Rosetta membrane prediction!
by wtscrystal » Tue, 2009-11-17 05:55
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2,424 by wtscrystal
Mon, 2014-04-21 06:47
Normal topic How can I use InterfaceScore terms in docking as GenericMonteCarlo criterion
by wwwmrzkwww » Sun, 2021-08-15 00:19
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851 by wwwmrzkwww
Sun, 2021-08-15 00:19
Normal topic Failure to produce a cst file
by biotech » Wed, 2022-10-26 11:17
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607 by biotech
Wed, 2022-10-26 11:17
Normal topic How do I implement more CPU cores in the execution of FlexPepDock?
by ChoripanSalado » Thu, 2024-05-02 08:55
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198 by ChoripanSalado
Thu, 2024-05-02 08:55
Normal topic Searching density map using real space correlation
by ahmadkhalifa » Fri, 2018-12-28 00:28
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979 by ahmadkhalifa
Fri, 2018-12-28 00:28
Normal topic [ WARNING ] missing an atom: 1 H that depends on a nonexistent polymer connection!
by Jane_002 » Tue, 2023-08-08 21:07
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634 by Jane_002
Tue, 2023-08-08 21:07
Normal topic Docking Metalloprotein-Protein
by fgomes » Fri, 2019-11-22 19:12
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1,237 by fgomes
Fri, 2019-11-22 19:12
Normal topic Cryo-EM: problem with RosettaCM using multiple template models as input
by Karol » Mon, 2016-08-29 05:26
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1,831 by Karol
Mon, 2016-08-29 05:27
Normal topic Method to keep ATP in the certain position in the prepack step
by ziqi1234 » Tue, 2017-11-21 05:55
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1,192 by ziqi1234
Tue, 2017-11-21 05:55
Normal topic incomparable ddG values
by ela » Fri, 2018-08-31 02:53
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1,278 by ela
Fri, 2018-08-31 02:53
Normal topic rna_denovo secstruct_general function
by rvandamme » Mon, 2021-02-01 13:39
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947 by rvandamme
Mon, 2021-02-01 13:39
Normal topic How to set jump between ligands
by Zehui Zhou » Wed, 2023-02-15 04:48
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515 by Zehui Zhou
Wed, 2023-02-15 07:12
Normal topic how to build homology based models?
by albumns » Thu, 2010-06-24 10:27
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1,534 by albumns
Mon, 2014-04-21 06:47
Normal topic Clustering error - Help, please
by karolcia1010 » Wed, 2020-06-17 11:19
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961 by karolcia1010
Wed, 2020-06-17 11:19
Normal topic Meaning of Metalbinding_constraint
by Corvin » Wed, 2021-05-19 07:54
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901 by Corvin
Wed, 2021-05-19 07:54
Normal topic General Forum Suggestion
by jadolfbr » Thu, 2011-09-29 08:11
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2,831 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic lDDT: local Distance Difference Test implemented?
by ipetrik_ambry » Wed, 2017-12-06 13:11
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1,382 by ipetrik_ambry
Wed, 2017-12-06 13:11
Normal topic Constraints use in RosettaCM
by a.book » Wed, 2018-10-03 12:11
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1,495 by a.book
Wed, 2018-10-03 15:56
Normal topic Does it make sense to perform Docking on a complex?
by chrisHKL » Mon, 2020-02-17 09:12
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947 by chrisHKL
Mon, 2020-02-17 09:12
Normal topic InterfaceDdGMover and ResfileReader
by asaf.farhi » Wed, 2022-04-13 15:05
0
872 by asaf.farhi
Wed, 2022-04-13 15:05
Normal topic N-Terminal Galactose
by SebastianBB » Mon, 2022-11-21 08:33
0
609 by SebastianBB
Mon, 2022-11-21 08:33
Normal topic maxsub calculation in scoring app
by abdullah » Thu, 2011-04-28 06:47
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1,758 by abdullah
Mon, 2014-04-21 06:47
Normal topic Centroid disulfide score weights
by vasek » Wed, 2014-01-22 23:34
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1,649 by vasek
Mon, 2014-04-21 06:48
Normal topic Finding affinity-reducing mutants towards a ligand in Ligand-based interface design protocol
by adityapadhi » Wed, 2020-06-24 01:29
0
920 by adityapadhi
Wed, 2020-06-24 01:29
Normal topic Problems with ICOOR when generating polymer params file
by liuwenxi » Tue, 2022-08-09 08:33
0
584 by liuwenxi
Tue, 2022-08-09 08:33
Normal topic FARFAR2 error: [ERROR: Not complementary at positions]
by Eden » Sat, 2023-11-18 02:39
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297 by Eden
Sat, 2023-11-18 02:39
Normal topic FARFAR and RNA_Tools: problem executing the command helix_preassemble_setup.py
by obdulia » Wed, 2018-04-18 00:45
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1,151 by obdulia
Wed, 2018-04-18 00:45
Normal topic "Rosetta predictions of density, heat of vaporization (∆Hvap) and heat capacity (Cp(l))"
by matteoferla » Tue, 2020-07-14 01:51
0
1,161 by matteoferla
Tue, 2020-07-14 01:51
Normal topic Get fasta from PDB script correction - Solved
by ialvy » Tue, 2022-08-30 00:00
0
599 by ialvy
Tue, 2022-08-30 00:00
Normal topic Problem running make_fragments.pl script
by anirbanzz » Thu, 2010-04-22 01:27
0
1,855 by anirbanzz
Mon, 2014-04-21 06:47
Normal topic what factors determine the lowest (best) LigInterfaceEnergy score?
by jmaly » Wed, 2020-08-26 13:07
0
1,150 by jmaly
Wed, 2020-09-02 16:16
Normal topic Rosettascript - change residue number and chain ID
by cttm4a1 » Wed, 2022-09-14 23:40
0
565 by cttm4a1
Wed, 2022-09-14 23:40
Normal topic Scripts and/or strategies for saturation mutagenesis simulations?
by drinker615 » Tue, 2024-04-16 18:43
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190 by drinker615
Tue, 2024-04-16 18:43
Normal topic Membrane AbInitio
by coxford » Sat, 2012-12-22 05:06
0
2,620 by coxford
Mon, 2014-04-21 06:47
Normal topic Error using FilterScan with rosettascripts
by SenyorDrew » Tue, 2016-12-13 14:29
0
1,360 by SenyorDrew
Tue, 2016-12-13 14:29
Normal topic Show I be using beta_nov16 scorefxn?
by matteoferla » Thu, 2021-04-01 04:06
0
1,286 by matteoferla
Thu, 2021-04-01 04:06
Normal topic RosettaDock-3.2 output
by Zjq1998 » Wed, 2022-06-15 23:54
0
549 by Zjq1998
Wed, 2022-06-15 23:54
Normal topic Memory error - double free or corruption
by almeida85 » Thu, 2023-05-25 06:18
0
463 by almeida85
Thu, 2023-05-25 06:18
Normal topic SnugDock or RosettaDock for HDX-MS data
by hanzhiz » Thu, 2021-12-16 09:18
0
712 by hanzhiz
Thu, 2021-12-16 09:18
Normal topic Ab Initio folding of protein with multiple chains?
by myang » Tue, 2009-11-24 13:01
0
1,681 by myang
Mon, 2014-04-21 06:47
Normal topic RosettaCM: help to generate similar models as those from Robetta Server
by haom » Wed, 2020-09-09 09:19
0
1,050 by haom
Wed, 2020-09-09 09:19

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