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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
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7,273 by admin
Fri, 2015-09-04 16:17
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
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16 by jkyan007
Thu, 2020-10-29 03:30
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
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41 by rmoretti
Tue, 2020-10-20 12:41
Normal topic hbond_sr_bb and hbond_lr_bb for different chains
by tylerborrman » Tue, 2020-10-13 13:41
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69 by rmoretti
Wed, 2020-10-14 08:25
Normal topic Bug Report - Encoding issue
by daniloboskovic » Tue, 2020-08-04 07:02
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74 by daniloboskovic
Tue, 2020-08-04 07:02
Normal topic NCAA Rotamers for Cyclosporin
by marinok » Mon, 2020-09-28 14:11
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77 by marinok
Mon, 2020-09-28 14:11
Normal topic not knowing which one of three ways to run rosettascript
by xinmiaohe » Tue, 2020-10-13 13:52
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84 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic Fewer than expected structures in clustering output
by fabiotrovato » Thu, 2020-08-20 00:59
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92 by fabiotrovato
Thu, 2020-08-20 00:59
Normal topic Pepspec Anchor Dock
by Soler » Wed, 2020-09-16 19:08
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93 by Soler
Wed, 2020-09-16 19:08
Normal topic clustering output file has few structures
by fabiotrovato » Mon, 2020-08-17 11:37
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94 by fabiotrovato
Mon, 2020-08-17 11:37
Normal topic FlexPepDocking
by jlawrie » Tue, 2020-09-15 12:52
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94 by jlawrie
Tue, 2020-09-15 12:52
Normal topic Does antibody_numbering_converter support camelid antibody?
by mxp » Tue, 2020-07-07 01:21
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96 by mxp
Tue, 2020-07-07 01:21
Normal topic Zero residues error in docking
by cjy318 » Tue, 2020-07-28 19:47
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98 by cjy318
Tue, 2020-07-28 19:47
Normal topic ERROR: Unable to fill in missing atoms.
by mieczyslaw » Tue, 2020-10-20 09:43
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100 by mieczyslaw
Thu, 2020-10-29 07:52
Normal topic I need some help for using pHDock applications(histidine protonation / pH-dependent binding)
by leygkn » Tue, 2020-09-22 18:40
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101 by leygkn
Tue, 2020-09-22 22:46
Normal topic Robetta ab initio - TrRosetta for membrane proteins
by benhardy » Wed, 2020-09-30 08:42
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106 by benhardy
Wed, 2020-09-30 08:42
Normal topic FASTA for Octopus
by Smbat » Wed, 2020-09-16 05:40
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108 by rmoretti
Wed, 2020-09-16 22:11
Normal topic Modeling-Using RosettaCM
by jlawrie » Wed, 2020-08-12 08:46
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109 by jlawrie
Wed, 2020-08-12 08:47
Normal topic Extracting top score PIPER models
by almeida85 » Mon, 2020-08-31 07:17
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114 by almeida85
Mon, 2020-08-31 07:17
Normal topic Input structure
by Soler » Mon, 2020-09-28 13:18
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118 by ssrb
Tue, 2020-09-29 12:37
Normal topic Global Docking with carbohydrates
by ChiauShu » Sat, 2020-08-22 20:16
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118 by ChiauShu
Sat, 2020-08-22 20:16
Normal topic How many iterations of remodel is enough?
by daniloboskovic » Thu, 2020-07-16 08:07
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120 by daniloboskovic
Thu, 2020-07-16 08:14
Normal topic metalloprotein ab initio with glutamic acid
by inorgchem » Tue, 2020-06-16 20:45
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123 by inorgchem
Tue, 2020-06-16 20:45
Normal topic Modelling of multi-component symmetrical structures
by LanMei » Wed, 2020-10-07 09:58
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123 by LanMei
Wed, 2020-10-07 09:58
Normal topic 'standard.wts' does not exist
by almeida85 » Mon, 2020-09-14 02:26
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124 by rmoretti
Mon, 2020-09-14 06:36
Normal topic RosettaAntibody3 core.pose.util error
by linhhoang157 » Tue, 2020-07-28 12:40
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124 by linhhoang157
Tue, 2020-07-28 12:40
Normal topic RosettaCM
by jlawrie » Fri, 2020-08-14 14:09
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125 by jlawrie
Fri, 2020-08-14 14:09
Normal topic zero standard deviation of I_sc in protein-protein docking
by rohi » Fri, 2020-07-03 22:19
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129 by rohi
Fri, 2020-07-03 22:20
Normal topic Pepspec Anchor Dock
by Soler » Fri, 2020-09-18 08:09
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130 by Soler
Fri, 2020-09-18 08:09
Normal topic Ligand docking with constraint
by Alison_Yajie » Wed, 2020-06-24 12:34
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131 by Alison_Yajie
Wed, 2020-06-24 12:34
Normal topic Scoring after HBNet
by HHL_SIUC » Wed, 2020-07-01 10:49
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131 by HHL_SIUC
Wed, 2020-07-01 10:49
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-07-02 07:05
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138 by Alison_Yajie
Thu, 2020-07-02 07:10
Normal topic "Residue 7 was disulfide bonded but had no partner" with antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-06-04 05:53
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138 by Sunyp_IM
Thu, 2020-06-04 05:54
Normal topic Side-chain grafting at the fixed protein and position
by Kazu » Wed, 2020-05-20 08:49
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139 by Kazu
Wed, 2020-05-20 08:49
Normal topic RosettaAntibody3 - How can I model an extended H3?
by brspurri » Fri, 2020-08-28 09:11
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141 by brspurri
Fri, 2020-08-28 09:11
Normal topic minimize_with_cst and convert_to_cst_file for ddG_monomer issues/confusion
by Kharlamov1317a » Mon, 2020-09-21 08:46
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142 by Kharlamov1317a
Wed, 2020-10-07 08:26
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-05-21 09:42
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146 by Alison_Yajie
Thu, 2020-05-21 09:42
Normal topic Metal Ion in symmetric design
by tschiex » Wed, 2020-07-08 05:28
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148 by tschiex
Wed, 2020-07-08 05:28
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
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149 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic Residue selector
by Alison_Yajie » Wed, 2020-06-17 19:57
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150 by Alison_Yajie
Thu, 2020-06-18 09:47
Normal topic protein relax
by Alison_Yajie » Tue, 2020-05-19 08:29
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151 by Alison_Yajie
Tue, 2020-05-19 08:29
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
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154 by jlawrie
Thu, 2020-08-20 11:00
Normal topic manually defining CDRs in antibody modelling
by gard.nelson » Fri, 2020-07-10 13:31
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157 by gard.nelson
Fri, 2020-07-10 13:31
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
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162 by Astghik
Thu, 2020-10-15 00:48
Normal topic Homology Modeling-no PDB output
by jlawrie » Wed, 2020-08-12 06:30
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166 by jlawrie
Wed, 2020-08-12 08:56
Normal topic how to know the precedure of solving a actural bio problem? like interface design?
by qq7678500549 » Thu, 2020-08-06 18:45
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167 by qq7678500549
Sun, 2020-08-09 18:59
Normal topic RosettaCM or FastRelax?
by Tianyang89 » Wed, 2020-09-23 07:46
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168 by danpf
Thu, 2020-09-24 13:44
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
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168 by jlawrie
Wed, 2020-08-12 07:27
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
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169 by ssrb
Sun, 2020-09-20 15:50
Normal topic General question regarding ligand-docking
by Alison_Yajie » Thu, 2020-05-07 09:48
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170 by Alison_Yajie
Thu, 2020-05-07 09:48
Normal topic density scoring
by Tianyang89 » Sat, 2020-08-29 04:54
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171 by danpf
Sun, 2020-08-30 22:23
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
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172 by rmoretti
Sun, 2020-09-06 10:10
Normal topic Docking-I_sc values do not correlate
by jlawrie » Wed, 2020-08-12 08:08
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172 by jlawrie
Wed, 2020-08-12 08:57
Normal topic How to select docked models
by Sunyp_IM » Mon, 2020-06-22 00:50
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173 by ssrb
Mon, 2020-06-22 13:12
Normal topic make_fragments.pl error
by almeida85 » Mon, 2020-08-31 04:39
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174 by almeida85
Tue, 2020-09-01 01:29
Normal topic BuildPeptide - Using Phosphorylated and Sulfated Tyrosine
by jlawrie » Thu, 2020-09-03 14:29
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178 by jlawrie
Wed, 2020-09-16 10:05
Normal topic Flex_ddG crashes when attempting to move 2 chains (e.g. chains_to_move = A,C)
by jcampecino » Wed, 2020-05-13 12:22
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185 by jcampecino
Wed, 2020-05-13 12:22
Normal topic Warning: Fold tree is not set properly for density scoring
by ahansel » Mon, 2020-07-13 10:50
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189 by danpf
Tue, 2020-07-14 10:27
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
194 by scyphs
Mon, 2020-08-10 08:09
Normal topic What is interface_cutoff_distance? And why did my residues outside this value get designed?
by chrisHKL » Fri, 2020-02-28 14:52
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196 by chrisHKL
Fri, 2020-02-28 14:52
Normal topic AbinitioRelax detect_disulf_tolerance
by aarono » Tue, 2020-06-02 00:13
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197 by aarono
Tue, 2020-06-02 00:13
Normal topic Scoring docking error
by almeida85 » Wed, 2020-09-02 01:32
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198 by almeida85
Wed, 2020-09-02 06:14
Normal topic score is 0 in the output? - RosettaScripts
by chrisHKL » Thu, 2020-03-05 09:33
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199 by chrisHKL
Thu, 2020-03-05 12:58
Normal topic appropriate sampling for protein docking to a multi chain assembly
by SWM » Fri, 2020-01-24 11:22
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202 by SWM
Fri, 2020-01-24 11:22
Normal topic Problems with mpi version of antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 23:06
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202 by Sunyp_IM
Thu, 2020-05-28 23:07
Normal topic mpirun docking_protocol
by NanB » Mon, 2020-08-03 11:38
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204 by ssrb
Fri, 2020-08-14 09:18
Normal topic Multistate design issues with -run:msd_job_dist option and MSDMover
by elaine.thai » Wed, 2020-05-13 18:07
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206 by elaine.thai
Wed, 2020-05-13 18:07
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
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209 by Alison_Yajie
Wed, 2020-06-17 20:35
Normal topic cartesian_ddg crashes when the mutfile contains multiple mutations to non-canonical residues
by ValentinaSora » Sun, 2020-05-24 12:32
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209 by ValentinaSora
Sun, 2020-05-24 12:32
Normal topic The difference between the H1 regions of modeled camelid antibody and the crystal structure.
by Sunyp_IM » Sun, 2020-06-07 02:34
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223 by nannemdp
Sun, 2020-06-07 08:01
Normal topic What means "[ ERROR ] TIME_STAMP: AbrelaxMover: finished ...NO_BATCH S_0001."
by Corvin » Thu, 2020-04-02 00:16
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223 by Corvin
Thu, 2020-04-02 00:16
Normal topic Changing rosetta scoring to favour less hydrophobic areas
by daniloboskovic » Thu, 2020-05-21 03:03
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224 by vmulligan
Thu, 2020-05-21 18:33
Normal topic Rosetta remodel - including an RNA ligand
by daniloboskovic » Fri, 2020-04-10 04:24
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225 by daniloboskovic
Fri, 2020-04-10 04:24
Normal topic Comparative Modeling Templates for Protein with Multiple Domains
by Morrian_Lynn » Wed, 2020-03-04 10:42
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228 by Morrian_Lynn
Wed, 2020-03-04 10:42
Normal topic Use membrane or non-membrane weights in RosettaCM for a hexon in virus capsid?
by lanselibai » Sat, 2020-04-11 02:10
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229 by lanselibai
Sat, 2020-04-11 02:10
Normal topic LoopModeler mover unable to determine cut point
by gszwabowski » Mon, 2020-06-01 13:12
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231 by matteoferla
Thu, 2020-07-02 07:27
Normal topic Trouble running MPI docking protocol, please help!
by Rob_Barringer » Tue, 2020-08-18 06:40
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232 by Rob_Barringer
Fri, 2020-09-25 05:45
Normal topic mp_transform optimize with franklin2019 scoring
by benhardy » Thu, 2020-05-28 08:35
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233 by benhardy
Thu, 2020-05-28 08:45
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
233 by Martin Floor
Tue, 2020-09-22 00:48
Normal topic can remodel add loops in one chain in multichain PDB structure?
by ksteczk » Fri, 2020-05-01 06:26
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235 by matteoferla
Mon, 2020-05-04 01:43
Normal topic DNA-protein docking
by ksteczk » Sat, 2020-04-11 11:23
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238 by ksteczk
Sat, 2020-04-11 11:23
Normal topic Can remodel really handle multiple insertions in one simulation?
by lanselibai » Sat, 2019-12-28 12:51
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241 by lanselibai
Sat, 2019-12-28 12:51
Normal topic Problem with mpirun/mpiexec
by ahansel » Fri, 2020-07-10 08:37
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251 by rmoretti
Fri, 2020-07-10 09:59
Normal topic Limit on backbone movement in relax?
by SWM » Fri, 2020-01-24 07:35
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255 by SWM
Fri, 2020-01-24 07:35
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48
3
257 by rmoretti
Tue, 2020-07-28 08:24
Normal topic application for affinity optimization
by wentlewi » Fri, 2020-03-13 03:24
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258 by wentlewi
Fri, 2020-03-13 03:24
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
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260 by matteoferla
Mon, 2020-05-04 02:02
Normal topic RosettaAntibody3 is failing with "Error: no input sequences were specified!"
by brspurri » Sun, 2020-08-16 16:16
4
266 by brspurri
Tue, 2020-08-18 09:57
Normal topic "core.kinematics.FoldTree" error upon running RAbD
by Sunyp_IM » Fri, 2020-06-26 17:27
2
274 by Sunyp_IM
Fri, 2020-06-26 20:57
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
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276 by sdh_h
Wed, 2020-03-25 12:43
Normal topic Ddg filter threshold value?
by chrisHKL » Fri, 2020-02-28 15:01
1
276 by rmoretti
Wed, 2020-03-04 09:56
Normal topic Docking the border segments of coiled coils in parallel orientation
by Corvin » Mon, 2019-12-02 02:00
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278 by Corvin
Mon, 2019-12-02 02:00
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
280 by bjharris
Thu, 2020-07-02 11:09
Normal topic Modelling temperature dependent RNA structures
by tuleshwori » Tue, 2020-05-19 01:16
2
287 by tuleshwori
Thu, 2020-05-21 02:08
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
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287 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic An error with score app
by Genta » Tue, 2019-10-29 18:46
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289 by Genta
Tue, 2019-10-29 18:46
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
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289 by pwging13
Thu, 2019-12-19 09:53
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Fri, 2020-06-19 08:58
2
291 by Kotimedidhi
Mon, 2020-06-22 16:19
Normal topic how to run ala_scan.xml
by xinmiaohe » Mon, 2019-08-26 09:38
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296 by xinmiaohe
Mon, 2019-08-26 09:38
Normal topic Segment File Gen - no ouput
by CATarr » Wed, 2019-10-09 19:05
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296 by CATarr
Wed, 2019-10-09 19:05

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