Search found 7 matches

by rupesh
Thu Jan 12, 2023 6:35 am
Forum: Main Forum
Topic: Replicas picked for clustering and model genaration while using I-TASSER
Replies: 2
Views: 285

Re: Replicas picked for clustering and model genaration while using I-TASSER

Thanks for your prompt response. It is much appreciated!
by rupesh
Tue Jan 10, 2023 10:27 am
Forum: Main Forum
Topic: Replicas picked for clustering and model genaration while using I-TASSER
Replies: 2
Views: 285

Replicas picked for clustering and model genaration while using I-TASSER

Hi, I have a doubt regarding the intricate methodology of I-TASSER standalone program. After performing the MC simulation via an A type run (ab initio), 8 replicas were picked for clustering, which is in contrast to only 3 replicas that were picked after an M type run. It would be great if someone c...
by rupesh
Wed Aug 31, 2022 9:53 am
Forum: Main Forum
Topic: Information regarding restraint files generated and used by I-TASSER standalone program
Replies: 1
Views: 903

Information regarding restraint files generated and used by I-TASSER standalone program

Hello! I am looking for information regarding restraint files that are generated from the threading templates viz., comb.dat, comb8CA.dat, combCA.dat, dist.dat, distL.dat, and par.dat. I know that these files are generated by mkinit.pl program which also has some information regarding them in the co...
by rupesh
Tue Jun 07, 2022 7:53 am
Forum: Main Forum
Topic: Error in final PDB model generated by I-TASSER standalone program
Replies: 2
Views: 635

Re: Error in final PDB model generated by I-TASSER standalone program

Thank you for your response. The zipped file is attache here.
by rupesh
Wed Jun 01, 2022 5:45 am
Forum: Main Forum
Topic: Error in final PDB model generated by I-TASSER standalone program
Replies: 2
Views: 635

Error in final PDB model generated by I-TASSER standalone program

Hello, While running the standalone I-TASSER program for structure prediction, at times I have encountered a problem with one of the predicted final models. The coordinates for atoms in a few residues show some weird values which defy the standard format of a PDB file. The closc and combo files howe...
by rupesh
Thu May 19, 2022 1:40 pm
Forum: Main Forum
Topic: Regarding the second iteration of the TASSER program in the I-TASSER standalone
Replies: 2
Views: 458

Regarding the second iteration of the TASSER program in the I-TASSER standalone

Hello, My query is regarding the downloadable version of I-TASSER. As the name states, a second iteration of TASSER is performed right after the clustering step. While going through the script runI-TASSER.pl, I failed to find the exact location where the second iteration is executed. I am curious to...