Dear user,
What server have you used?
Best Regards
Wei Zheng
Search found 247 matches
- Wed Mar 13, 2024 12:47 pm
- Forum: Main Forum
- Topic: Different Structures for the same sequence
- Replies: 3
- Views: 43555
- Thu Feb 29, 2024 10:58 pm
- Forum: Main Forum
- Topic: TM-align results
- Replies: 3
- Views: 3869
Re: TM-align results
Dear user,
Yes, you definitely can use the results for publications, we would appreciate it if you could cite our TM-align work that appears on the website. Thank you.
Best Regards
Wei Zheng
Yes, you definitely can use the results for publications, we would appreciate it if you could cite our TM-align work that appears on the website. Thank you.
Best Regards
Wei Zheng
- Wed Feb 28, 2024 12:40 pm
- Forum: Main Forum
- Topic: Questions about the new version of DMFold
- Replies: 1
- Views: 3430
Re: Questions about the new version of DMFold
Dear Gary, AlphaFold2 default pipeline indeed uses HHsearch to detect the template which will be one of the inputs, so it is correct for modeling. You are also correct if you do not want to use a template, you can set the seqcut parameter as 0, then the template features will be set as NA in the AF2...
- Mon Feb 26, 2024 4:55 am
- Forum: Main Forum
- Topic: D-I-TASSER Job Running for 13 days
- Replies: 3
- Views: 3183
Re: D-I-TASSER Job Running for 13 days
Dear user,
The issue of your jobs has been fixed, and now it goes into the simulation step. We expect the jobs could be completed in the next 3-5 days. Let us know if you have any other issues or could get the results next week. Thank you for your bug reporting.
Best Regards
Wei Zheng
The issue of your jobs has been fixed, and now it goes into the simulation step. We expect the jobs could be completed in the next 3-5 days. Let us know if you have any other issues or could get the results next week. Thank you for your bug reporting.
Best Regards
Wei Zheng
- Sun Feb 25, 2024 4:07 pm
- Forum: Main Forum
- Topic: D-I-TASSER Job Running for 13 days
- Replies: 3
- Views: 3183
Re: D-I-TASSER Job Running for 13 days
Dear user,
It is somehow related to our former library issue. But you can let me know the job ids, I will check if any issues with your jobs.
Best Regards
Wei Zheng
It is somehow related to our former library issue. But you can let me know the job ids, I will check if any issues with your jobs.
Best Regards
Wei Zheng
- Sun Feb 25, 2024 4:04 pm
- Forum: Main Forum
- Topic: "DMFAF2 jobs are not complete yet" End in Run_DMFold.py
- Replies: 1
- Views: 2825
Re: "DMFAF2 jobs are not complete yet" End in Run_DMFold.py
Dear Xilong, To speed up the modeling process, we fine-tune the maximal modeling MSA pair as 25 (scoring MSAs by M-score, see the paper for details), thus you get 25*5*5=625 models. The results you get are complete. While, if you want to generate more models, you can enlarge the cutoff from 25 to mo...
- Sat Feb 24, 2024 1:38 pm
- Forum: Main Forum
- Topic: How to obtain protein complex pdb with DMFold?
- Replies: 1
- Views: 2898
Re: How to obtain protein complex pdb with DMFold?
Dear user,
If you want to get the complex structure, please download the DMFold package instead of DeepMSA2.
https://zhanggroup.org/DMFold/
Best Regards
Wei Zheng
If you want to get the complex structure, please download the DMFold package instead of DeepMSA2.
https://zhanggroup.org/DMFold/
Best Regards
Wei Zheng
- Fri Feb 23, 2024 4:52 am
- Forum: Main Forum
- Topic: Multiple sequences
- Replies: 1
- Views: 2769
Re: Multiple sequences
Dear user, We do not accept multiple submissions at one time, and since we have a lot of users and limited resources, to serve more, we limit one job/user. If you want to run more, you can download our standalone package. Let us know if you have any other questions, or if you need any help. Best Reg...
- Fri Feb 23, 2024 4:48 am
- Forum: Main Forum
- Topic: I-TASSER standalone suite installation
- Replies: 7
- Views: 4376
Re: I-TASSER standalone suite installation
Dear Righteous,
This is the available link https://zhanggroup.org/library/nr.tar.gz you can manually click and download.
Best Regrads
Wei Zheng
This is the available link https://zhanggroup.org/library/nr.tar.gz you can manually click and download.
Best Regrads
Wei Zheng
- Mon Feb 19, 2024 8:37 pm
- Forum: Main Forum
- Topic: I-TASSER standalone suite installation
- Replies: 7
- Views: 4376