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dauparas
/
ProteinMPNN
Code for the ProteinMPNN paper
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828
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20
Issues:
82
Forks:
245
dauparas/ProteinMPNN Issues
Error in running colab version.
Updated
3 months ago
Where is the LigandMPNN
Updated
3 months ago
Comments count
2
Model is adding an amino acid to the original sequence
Updated
3 months ago
Comments count
5
Amino acid sequence has too many "K/E"
Updated
3 months ago
Comments count
2
Need of assistance and advising
Updated
3 months ago
Clarify 'design chains'
Updated
3 months ago
Comments count
1
How do I use a PSSM with proteinMPNN?
Updated
3 months ago
Design complexes with unknown chains (proposed fix included)
Updated
4 months ago
whether to redesign low confidence aas
Updated
4 months ago
Retrieve per-position scores or score a chain in the context of another
Updated
4 months ago
Warnings From Example Scripts?
Closed
5 months ago
Comments count
2
Training model
Updated
5 months ago
`parse_cif_noX.py` misses some chains in CATH?
Updated
5 months ago
conditional_probs_only_backbone is ignored when used alone
Updated
5 months ago
Indexing with Missing Residues
Updated
6 months ago
Comments count
4
Designing Interface Residues
Updated
6 months ago
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1
Tying Multiple Chains Independently
Closed
6 months ago
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4
From 2 distinct structure to a single sequence ?
Updated
6 months ago
Comments count
4
Question about global vs local score
Closed
7 months ago
Comments count
1
--bias_by_res_jsonl example?
Closed
7 months ago
Comments count
3
What constitutes a "low quality" backbone?
Updated
7 months ago
Comments count
4
question: prob vs log_prob matrices
Updated
8 months ago
mmseq clustering logic
Updated
8 months ago
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2
limit to number of chains in homooligomers
Updated
8 months ago
Comments count
1
O_chain_A = NaN and Global_Score=NaN
Updated
9 months ago
Comments count
1
Usage of --omit_AA_jsonl
Closed
9 months ago
Omit AAs per resiude
Closed
9 months ago
Comments count
2
Is there a way to set a maximum number of mutations per designed sequence?
Closed
9 months ago
Comments count
2
What's the numbering scheme for fixed_residues?
Closed
9 months ago
How to prepare input files for fine-tuning with multimers?
Updated
10 months ago
General Soluble Model Question
Closed
10 months ago
Comments count
4
Choosing the redesigned structure
Updated
10 months ago
Using multiple input structures for a single sequence output
Updated
a year ago
Comments count
2
training with a custom dataset
Updated
a year ago
question about dataset
Updated
a year ago
About the variable "order_mask_backward" in protein_mpnn_utils.py, line 1085
Updated
a year ago
Comments count
2
New feature: Python package
Closed
a year ago
Comments count
2
Example of using omit_AA?
Closed
a year ago
Comments count
2
Why sequence design takes protein sequences as inputs?
Closed
a year ago
Comments count
3
How to get the predicted PSSM from structure?
Closed
a year ago
Comments count
1
Safety of generated sequences
Closed
a year ago
Comments count
1
How many paramters are there in ProteinMPNNmodels?
Closed
a year ago
Comments count
1
OSError: [Errno 22] Invalid argument: 'inputs/*pdb' .How do fix this bug?
Closed
a year ago
Comments count
1
Disallow --use_soluble_model if --ca_only is specified
Closed
a year ago
Comments count
1
scripts to generate PDBID_CHAINID.pt and PDBID.pt
Closed
a year ago
Comments count
4
Discrepancy between paper and code on attention module
Closed
a year ago
Amino acid sequence has too many "A"
Closed
a year ago
Comments count
2
Criteria for selecting top-ranked sequence?
Closed
a year ago
Comments count
2
Homooligimer while also fixing residues
Updated
a year ago
Comments count
1
Clarification about score and global_score?
Closed
a year ago
Comments count
1
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