dauparas ProteinMPNN issues

dauparas / ProteinMPNN

Code for the ProteinMPNN paper

MIT License

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issues

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What dose 'S' key mean in score_only result

#113 yipukangda opened 6 days ago
0
fix the fasta path

#112 dongspy opened 4 weeks ago
0
No chain_set_test.jsonl file in the root directory

#111 Eager-to-earn-money-standing-up opened 1 month ago
0
How to confirm the global polar amino acid bias value? What is the meaning of 1.39?

#110 luojc712 opened 1 month ago
1
--omit_AA "CM" parameter?

#109 Jahyunhong opened 1 month ago
0
jsonl file to pdb

#108 ahorvath opened 2 months ago
0
No use of GPU?

#107 khayatlab opened 3 months ago
1
Global_score

#106 zjlclimb opened 4 months ago
0
what pdbx package does parse_cif_noX.py expect?

#105 cseed opened 4 months ago
2
Sampling temperature for flexible chains

#104 Davood-Norouzi opened 4 months ago
0
.Fa Output reorganization question

#103 noah-c-noah-do opened 4 months ago
0
Added a change to LJ-branch to start a new pull request. (Take 2)

#102 laurjones closed 4 months ago
0
Pull Request .01

#101 laurjones closed 4 months ago
0
Questions about model weights

#100 mh8859 opened 4 months ago
0
RuntimeError: Class values must be smaller than num_classes. | protein_mpnn_utils.py & mask_size issue?

#99 emilyrkang opened 5 months ago
0
Empty parsed_pdbs.jsonl file from parse_multiple_chains.py helper script?

#98 emilyrkang closed 5 months ago
1
What is the difference between --conditional_probs_only_backbone and --unconditional_probs_only

#97 tsjain opened 5 months ago
1
Training time

#96 sahamitul opened 6 months ago
1
Creates hydrophobic surface patches wit many Ala side chains

#95 gha2012 opened 6 months ago
2
Fix for issue #92 - Adding proline

#94 tony-res opened 6 months ago
0
Drone

#93 decarboxy closed 6 months ago
0
Model is adding an amino acid to the original sequence

#92 tony-res opened 6 months ago
5
Need of assistance and advising

#91 Hanoriega opened 6 months ago
0
How do I use a PSSM with proteinMPNN?

#90 proteins247 opened 6 months ago
0
Amino acid sequence has too many "K/E"

#89 kjogr12 opened 7 months ago
2
Make the path handling more platform agnostic.

#88 netogallo opened 7 months ago
0
Fix bug related to np.pad() when handling complexes with unknown chains

#87 SimonCrouzet opened 7 months ago
0
Design complexes with unknown chains (proposed fix included)

#86 SimonCrouzet opened 7 months ago
0
whether to redesign low confidence aas

#85 18217265596 opened 7 months ago
0
Retrieve per-position scores or score a chain in the context of another

#84 amin-sagar opened 7 months ago
0
Training model

#83 luoyu5023 opened 8 months ago
0
`parse_cif_noX.py` misses some chains in CATH?

#82 tyang816 opened 8 months ago
2
Warnings From Example Scripts?

#81 jamesrgraham closed 8 months ago
2
conditional_probs_only_backbone is ignored when used alone

#80 TCoulth opened 9 months ago
0
Add error alerts for folder_with_pdbs .pdb error

#79 jfreeze95 opened 9 months ago
0
Clarify 'design chains'

#78 jadolfbr opened 9 months ago
1
Indexing with Missing Residues

#77 brucejwittmann opened 9 months ago
4
Tying Multiple Chains Independently

#76 brucejwittmann closed 9 months ago
4
From 2 distinct structure to a single sequence ?

#75 PodevynLoris opened 10 months ago
4
Question about global vs local score

#74 jadolfbr closed 10 months ago
1
--bias_by_res_jsonl example?

#73 tony-res closed 10 months ago
3
Where is the LigandMPNN

#72 chengyunzhang opened 10 months ago
2
question: prob vs log_prob matrices

#71 agarrubio opened 11 months ago
0
feat: refactored and added setup.py for easy install

#70 maxkazman closed 11 months ago
0
limit to number of chains in homooligomers

#69 acarbn opened 11 months ago
1
Usage of --omit_AA_jsonl

#68 Cookiemaster33 closed 1 year ago
0
Adding progress bar for long jobs

#67 tony-res closed 9 months ago
0
[setup] Add a setup.py

#66 edawson opened 1 year ago
0
Omit AAs per resiude

#65 Cookiemaster33 closed 1 year ago
2
Is there a way to set a maximum number of mutations per designed sequence?

#64 noah-c-noah-do closed 1 year ago
2