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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
0
17,560 by admin
Fri, 2015-09-04 16:17
Normal topic Abnormal output of ScoreCutoffFilter
by DivingWhale » Thu, 2024-05-30 18:46
0
119 by DivingWhale
Thu, 2024-05-30 18:48
Normal topic Error in snugdock application
by syntekabio2019 » Tue, 2024-05-28 00:59
0
108 by syntekabio2019
Tue, 2024-05-28 00:59
Normal topic PDB file showing error - missing heavyatom: OXT on residue LYS:CtermProteinFull 59
by intomybioverse » Wed, 2024-05-15 23:38
3
255 by rmoretti
Mon, 2024-05-20 07:22
Normal topic PyIgClassify cannot renumber and label CDRs my Nanobody-Antigen complex for RabD
by WBNeT » Fri, 2023-07-07 10:58
2
746 by josiefanxu
Tue, 2024-05-14 21:17
Normal topic Problems met when do H3_modeling in the antibody design protocol
by ng98 » Sun, 2024-05-12 18:40
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225 by ng98
Sun, 2024-05-12 18:56
Normal topic Segmentation fault (core dumped) in rosettaDNA.static.linuxgccrelease
by intomybioverse » Sun, 2024-04-28 04:51
1
311 by rmoretti
Mon, 2024-04-29 10:04
Normal topic "Segmentation Fault" error occurred when Running a pilot job
by Cooben » Thu, 2024-04-18 19:47
1
273 by Cooben
Thu, 2024-04-25 01:46
Normal topic Error in rosetta minimization
by syntekabio2019 » Wed, 2024-04-17 07:04
1
187 by rmoretti
Wed, 2024-04-17 08:50
Normal topic Model GFP chromophore(cro) using NCAA or NC backbone method?
by lei » Thu, 2024-04-04 06:23
0
198 by lei
Thu, 2024-04-04 06:23
Normal topic Match Application Error: Assertion `build_sets_[ build_set_id ].restype().has( "1HA" )` failed
by Payne » Sun, 2024-03-24 07:26
1
231 by Payne
Sun, 2024-03-31 01:29
Normal topic errors about RIFdocking
by sia » Sun, 2022-07-24 20:45
8
3,244 by Minghui-Du
Sun, 2024-03-24 21:12
Normal topic Hamiltonian Exchange
by JSK » Mon, 2024-03-18 12:48
0
183 by JSK
Tue, 2024-03-19 09:21
Normal topic several question in mpensemble dock
by lluoto » Tue, 2024-03-12 07:54
1
301 by lluoto
Tue, 2024-03-19 05:28
Normal topic Error in score funtion "hack_elec 0.42"
by intomybioverse » Sun, 2024-03-17 06:33
1
220 by rmoretti
Mon, 2024-03-18 08:55
Normal topic How to use rewrite_rosetta_script.py to update XML script file?
by intomybioverse » Fri, 2024-03-15 06:44
2
322 by intomybioverse
Sun, 2024-03-17 06:22
Normal topic Deciding -nstruct for RNA FARFAR2
by mandar » Thu, 2024-03-07 22:16
3
470 by mandar
Thu, 2024-03-14 22:25
Normal topic Number of Monte Carlo Cycles for FARFAR2
by mandar » Tue, 2024-03-12 19:11
2
332 by mandar
Tue, 2024-03-12 23:07
Normal topic Creation of crystal_complex.pdb for docking
by HBenson » Mon, 2024-03-11 08:57
0
226 by HBenson
Mon, 2024-03-11 08:57
Normal topic Stub Libraries for DockWithHotspotMover
by ayush_patel » Sat, 2024-03-09 22:43
0
187 by ayush_patel
Sat, 2024-03-09 22:43
Normal topic Error Run Blueprint File
by ileanexis » Thu, 2024-03-07 10:28
0
192 by ileanexis
Thu, 2024-03-07 10:28
Normal topic How to debug the XML script file?
by intomybioverse » Wed, 2024-03-06 06:32
2
363 by rmoretti
Wed, 2024-03-06 06:51
Normal topic BridgeChains mover deletes residues at break
by kmj » Thu, 2024-02-22 12:14
0
340 by kmj
Thu, 2024-02-22 12:14
Normal topic remove membrane for RosettaMPdock
by lluoto » Wed, 2023-12-06 06:22
2
643 by lluoto
Wed, 2024-02-21 17:39
Normal topic Errors about rifdock step 15
by ng98 » Thu, 2024-02-01 17:41
0
383 by ng98
Thu, 2024-02-01 17:41
Normal topic PIPER-FlexPepDock [commercial user]
by Skelly » Tue, 2024-01-23 16:14
0
396 by Skelly
Tue, 2024-01-30 14:08
Normal topic Inquiry about MPI-Rosetta: Issue with -nstruct Parameter
by serena » Wed, 2024-01-24 00:59
1
349 by rmoretti
Wed, 2024-01-24 08:46
Normal topic Error about rifdocking step 15
by ng98 » Sun, 2024-01-21 16:30
4
653 by ng98
Tue, 2024-01-23 17:01
Normal topic Memory Leak: Relax Density MPI RAM overusage kills process
by mmfarrugia » Sun, 2023-12-31 12:02
5
773 by mmfarrugia
Fri, 2024-01-12 10:35
Normal topic the results obtained after docking using RosettaDock and ZDOCK
by aha » Thu, 2024-01-04 21:13
1
418 by rmoretti
Thu, 2024-01-11 14:39
Normal topic Error about rifdocking step 12
by ng98 » Mon, 2024-01-08 16:27
3
650 by ng98
Tue, 2024-01-09 23:42
Normal topic Broken structure of local docking of replicadock2
by Jun » Thu, 2023-12-28 00:26
0
347 by Jun
Thu, 2023-12-28 00:26
Normal topic Is Biopython required to run pdb_renumber.py?
by ljjjxay » Wed, 2023-11-22 20:00
6
1,033 by ljjjxay
Wed, 2023-12-06 19:24
Normal topic analyze_flex_ddG.py
by valebut » Tue, 2023-11-28 04:30
1
501 by Aleksandra Panfilova
Tue, 2023-11-28 05:34
Normal topic I want to refine my pdb file,but it has multiple breaks or has multiple loops missing resi
by Edward » Sat, 2023-11-25 04:58
1
477 by Edward
Sat, 2023-11-25 05:17
Normal topic Error with SapScoreMetric (SimpleMetric sap_score not found in basic::datacache::DataMap)
by Seongsung » Fri, 2023-11-24 05:09
0
313 by Seongsung
Fri, 2023-11-24 13:14
Normal topic Cannot install DAlphaBall
by gerdos » Fri, 2023-10-13 07:55
1
763 by Seongsung
Fri, 2023-11-24 04:52
Normal topic nomenclature question in molfile_to_params_polymer.py in ncaa design
by lei » Tue, 2023-11-21 09:47
2
466 by lei
Wed, 2023-11-22 06:23
Normal topic Match: Outputs with 0 hits for cst and clashes with sidechains
by uka147 » Wed, 2023-11-08 06:11
0
321 by uka147
Thu, 2023-11-09 01:36
Normal topic 'Use_filters true' option - failure of AbInitio Relax application
by Corvin » Wed, 2023-11-08 06:34
0
275 by Corvin
Wed, 2023-11-08 06:34
Normal topic Error with docking_prepack_protocol while executing the tutorial "Docking Flexible Proteins"
by vitoralmeida1808 » Mon, 2023-11-06 09:43
0
317 by vitoralmeida1808
Mon, 2023-11-06 09:43
Normal topic Are catalytic residues mutatable?
by uka147 » Thu, 2023-10-26 03:49
3
781 by uka147
Mon, 2023-10-30 01:53
Normal topic Docking to TM protein plus lipid bilayer
by renedominik » Tue, 2019-03-12 06:58
4
3,904 by elpipasp
Thu, 2023-10-19 04:37
Normal topic ERROR: Assertion `static_cast< size_type >( i - l_ ) < super::size()` failed. ERROR:: Exit from: src/utility/vectorL.hh line: 42
by yliang20 » Wed, 2022-06-15 22:22
2
1,536 by jxw
Wed, 2023-10-11 10:04
Normal topic Dock cyclic peptide with non-canonical amino acids to protein target using rosetta flexpepdock?
by lei » Mon, 2023-09-11 23:34
2
715 by lei
Wed, 2023-09-13 19:35
Normal topic ValueError("Path %s does not exist!" % path_name) for rna_helix.py
by kameisel » Wed, 2023-08-16 00:39
2
706 by kameisel
Wed, 2023-09-13 02:16
Normal topic FixedBB design output no beta strands
by tkoh » Fri, 2023-08-25 01:02
1
526 by rmoretti
Tue, 2023-08-29 20:13
Normal topic How do I compare the results of InterfaceAnalyzer using different trimers as input?
by franz72 » Sun, 2023-08-06 10:10
0
393 by franz72
Sun, 2023-08-06 10:10
Normal topic Rosetta Design: Non-canonical amino acid substrate not accepted
by Friedrich Ehinger » Fri, 2023-08-04 00:09
2
736 by Friedrich Ehinger
Fri, 2023-08-04 08:38
Normal topic Multistate design issues with -run:msd_job_dist option and MSDMover
by elaine.thai » Wed, 2020-05-13 18:07
2
3,236 by Jane_002
Thu, 2023-08-03 19:47
Normal topic RECCESS-Rosetta Segmentation Fault with nonnatural residues
by skorro » Tue, 2023-07-25 17:13
1
543 by skorro
Fri, 2023-07-28 12:20
Normal topic Antibody Structure Prediction - Error on antibody_H3 step: "Option matching -antibody:remodel not found in command line"
by ramon-arg » Mon, 2023-07-24 17:56
0
376 by ramon-arg
Mon, 2023-07-24 17:56
Normal topic ERROR: ResidueType::add_ring: Requested atoms don't exist in this ResidueType!
by walidabualafia » Thu, 2023-07-20 09:44
1
527 by rmoretti
Thu, 2023-07-20 10:08
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
1,318 by yueyuedake
Sun, 2023-07-16 19:17
Normal topic rosetta_cm - ERROR: Assertion `tlen < slen` failed on File: src/core/fragment/util.cc:177
by ramon-arg » Thu, 2023-07-13 18:41
2
711 by ramon-arg
Fri, 2023-07-14 07:47
Normal topic Memory Leak in FragmentPicker.cxx11thread application
by Corvin » Tue, 2023-07-11 06:04
0
382 by Corvin
Thu, 2023-07-13 05:30
Normal topic EMERALD method not working, Rosetta version not available for download
by seba » Thu, 2023-05-04 08:14
6
1,765 by rmoretti
Mon, 2023-07-10 08:57
Normal topic cluster docked pdbs
by kwu030 » Wed, 2023-06-14 22:48
1
701 by rmoretti
Wed, 2023-06-28 12:36
Normal topic Generating a new Vall database
by vijay.anand » Tue, 2023-06-20 12:08
0
468 by vijay.anand
Tue, 2023-06-20 12:08
Normal topic Silent File Scores Missing: RNA Protein Complex Predition
by axio23 » Fri, 2023-06-16 05:45
0
460 by axio23
Fri, 2023-06-16 05:45
Normal topic non-zero ddG of binding even without mutations
by top-gun98 » Wed, 2023-06-07 17:19
0
501 by top-gun98
Wed, 2023-06-07 17:19
Normal topic CC (or similar) calculation for cryoEM fitting
by almeida85 » Tue, 2023-05-16 01:32
2
851 by almeida85
Tue, 2023-05-23 08:23
Normal topic dG_separated values comparison
by almeida85 » Mon, 2023-04-24 03:34
0
622 by almeida85
Tue, 2023-05-16 01:02
Normal topic Error with xml script
by almeida85 » Tue, 2023-03-28 01:53
0
660 by almeida85
Tue, 2023-05-16 01:00
Normal topic Simple_cycpep_predict with crosslinker BBMB
by Ken » Tue, 2023-05-09 08:52
0
535 by Ken
Tue, 2023-05-09 08:52
Normal topic Docking one protein into interface between two other proteins
by Cheems » Sat, 2023-05-06 09:49
3
1,052 by rmoretti
Mon, 2023-05-08 13:14
Normal topic Missing atoms, unable to fill in missing atoms
by kwu030 » Fri, 2023-05-05 13:41
1
615 by rmoretti
Fri, 2023-05-05 13:44
Normal topic unable to generate the span file with "mp_span_from_pdb.default.linuxgccrelease" from a PDB file
by Sajjad » Wed, 2022-11-30 11:40
1
4,300 by FJOM
Wed, 2023-05-03 07:21
Normal topic Problems with ligand when running RosettaLigand
by Cat » Mon, 2013-05-20 15:58
6
7,291 by Aben
Tue, 2023-04-18 01:31
Normal topic XML validation failing
by mb0261 » Fri, 2023-04-14 14:53
11
2,607 by mb0261
Mon, 2023-04-17 17:38
Normal topic error in loop remodeling
by syntekabio2019 » Wed, 2023-04-05 01:00
0
527 by syntekabio2019
Wed, 2023-04-05 01:01
Normal topic Protein Protein Docking with Linker
by mrinal » Mon, 2023-03-20 15:58
0
870 by mrinal
Mon, 2023-03-20 15:58
Normal topic core.pose.util: (0) {0} [ ERROR ] Can't find residue type 'UNK' in type set of mode fa_standard
by ldx022 » Thu, 2023-03-16 04:13
0
1,213 by ldx022
Thu, 2023-03-16 04:13
Normal topic Lots of Prepacking Jobs for Snugdock Failing
by katherinemccoy » Tue, 2023-02-28 18:17
0
2,375 by katherinemccoy
Mon, 2023-03-13 19:10
Normal topic ReplicaDock 2.0 Native vs Input Structure Flags Confusion
by katherinemccoy » Tue, 2022-12-27 06:42
2
4,949 by katherinemccoy
Tue, 2023-02-28 18:19
Normal topic how to control alignment for energy_based_clustering
by xfradera » Tue, 2023-02-28 10:13
0
1,908 by xfradera
Tue, 2023-02-28 10:13
Normal topic ligand_docking
by yang » Thu, 2023-02-16 04:37
2
2,627 by yang
Wed, 2023-02-22 19:18
Normal topic St13runtime_error in Rosetta ligand docking
by syntekabio2019 » Thu, 2023-02-09 18:18
2
3,213 by syntekabio2019
Sun, 2023-02-19 18:39
Normal topic How to change the axes of "-spin" in docking_protocol
by Zehui Zhou » Mon, 2023-02-13 22:06
0
2,247 by Zehui Zhou
Mon, 2023-02-13 22:06
Normal topic Comparing a prediction to the native structure and calculate RMSD for RNA
by danwolf_33 » Thu, 2023-02-09 09:32
0
2,024 by danwolf_33
Thu, 2023-02-09 09:34
Normal topic relax protein with multi-conformer bound ligand
by xfradera » Thu, 2023-01-12 09:10
4
3,613 by rmoretti
Mon, 2023-02-06 15:06
Normal topic prepack - residue count fails
by xfradera » Fri, 2023-01-27 06:36
0
1,295 by xfradera
Fri, 2023-01-27 06:36
Normal topic Different scoring applications (score vs score_aln vs score_jd2, etc.)?
by cossio » Fri, 2014-12-26 07:19
3
4,951 by Patrícia Antunes
Fri, 2023-01-20 11:55
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
2,838 by lei
Fri, 2023-01-20 08:11
Normal topic Grafting using antibody.mpi.linuxgccrelease and specifying custom template which doesnt have pdb id.
by SubhaK » Wed, 2023-01-18 23:33
0
1,025 by SubhaK
Wed, 2023-01-18 23:33
Normal topic Snugdock Error: The sequence position requested was greater than the number of residues
by stannowitz » Tue, 2023-01-17 07:37
0
1,200 by stannowitz
Tue, 2023-01-17 23:48
Normal topic RosettaCM Ignoring Ligand
by Delfosse57 » Sun, 2022-12-04 12:05
0
4,018 by Delfosse57
Sun, 2022-12-04 12:05
Normal topic Unable to locate the "compute_ddg.py" file and running the RosettaMP protocol
by Sajjad » Mon, 2022-11-28 14:09
3
5,164 by Sajjad
Wed, 2022-11-30 11:50
Normal topic The confussion about an example in tutorial in Rosetta Virtual Workshop 2020
by ldx022 » Tue, 2022-11-29 04:58
3
4,536 by ldx022
Tue, 2022-11-29 08:38
Normal topic Score.sc file showing total score 0 for all protein structures created
by aanshi » Wed, 2022-11-23 11:13
1
3,713 by nannemdp
Mon, 2022-11-28 09:39
Normal topic Help to understand docking results
by rtorquato » Fri, 2022-11-25 12:05
0
1,590 by rtorquato
Fri, 2022-11-25 12:05
Normal topic snugdock: constrained backbone
by mahendra » Mon, 2022-11-14 02:51
0
1,850 by mahendra
Mon, 2022-11-14 02:51
Normal topic Ligand Rotamer Control in Macther
by Hirbond » Tue, 2022-10-25 13:01
0
1,826 by Hirbond
Wed, 2022-10-26 12:57
Normal topic Setting pivots points for GenKIC
by almeida85 » Tue, 2022-10-25 02:32
0
1,749 by almeida85
Tue, 2022-10-25 02:32
Normal topic Small molecule dimer/trimer/etc docking
by lukasz » Tue, 2022-10-04 06:49
1
1,883 by rmoretti
Tue, 2022-10-04 07:57
Normal topic Symmetry definition question
by mrconde96 » Sun, 2022-10-02 05:34
0
1,436 by mrconde96
Sun, 2022-10-02 05:34
Normal topic Old Knotfind algorithm
by Martin Floor » Thu, 2022-09-22 07:28
1
1,235 by rmoretti
Fri, 2022-09-23 09:38
Normal topic ReplicaDock2.0 demo fails with MPIFileBufJobDistributor: (1) [ ERROR ]
by erpannec » Tue, 2022-08-09 05:42
4
2,125 by erpannec
Thu, 2022-09-15 05:17
Normal topic Prepacking a macrocycle for docking / preserving cyclization
by almeida85 » Thu, 2022-09-08 06:54
0
945 by almeida85
Thu, 2022-09-08 06:54
Normal topic Trehalose
by jpfuenzalidawx » Thu, 2022-09-08 00:49
0
973 by jpfuenzalidawx
Thu, 2022-09-08 00:49

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