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adaptyvbio
/
ProteinFlow
Versatile computational pipeline for processing protein structure data for deep learning applications.
https://adaptyvbio.github.io/ProteinFlow/
BSD 3-Clause "New" or "Revised" License
176
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8
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Valid test split doesn't work, returns 0.00% test size and valid % not correct either
#142
arjan-hada
closed
1 week ago
1
--species option in `proteinflow generate --help`
#141
arjan-hada
closed
2 weeks ago
1
recreate pdbs after generate?
#140
paoslaos
opened
2 months ago
1
Support python=3.12
#139
0x1orz
closed
2 months ago
1
fix: add a check for to_pdb
#138
elkoz
closed
4 months ago
0
Protein classes
#137
elkoz
closed
4 months ago
0
Test issue
#136
elkoz
closed
4 months ago
1
include nanobody?
#135
pengzhangzhi
closed
4 months ago
0
Setting entry_type='biounit' and classes_to_exclude=["homomers", "heteromers"] throws KeyError for subset of proteins
#134
ardagoreci
closed
4 months ago
0
classes_to_exclude is not filtering proteins correctly
#133
ardagoreci
closed
4 months ago
1
Calling ProteinEntry.from_pickle(<path>).to_pdb(<target_path>) on the entire dataset reveals errors
#132
ardagoreci
opened
5 months ago
2
Adjust splitting
#131
elkoz
closed
6 months ago
0
Select CDRs
#130
elkoz
closed
6 months ago
0
Add filtering nanobodies
#129
elkoz
closed
6 months ago
0
Fix splitting
#128
elkoz
closed
6 months ago
0
Fix docs
#127
elkoz
closed
6 months ago
0
Improve splitting
#126
elkoz
closed
6 months ago
0
Minor fixes
#125
elkoz
closed
7 months ago
0
Improve classes handling
#124
elkoz
closed
7 months ago
0
ProteinDataset throws ValueError when classes_to_exclude is set
#123
ardagoreci
closed
7 months ago
1
Make some dependencies optional
#122
elkoz
closed
7 months ago
0
Fix bugs
#121
elkoz
closed
7 months ago
0
ProteinDataset construction works the first time, throws list index out of range error in the second run.
#120
ardagoreci
closed
7 months ago
1
proteinflow generate throws error "generate_data() got an unexpected keyword argument 'skip_processing'"
#119
ardagoreci
closed
7 months ago
0
Improve basic functions
#118
elkoz
closed
7 months ago
0
Add more metrics
#117
elkoz
closed
7 months ago
0
Fix exclusion bug
#116
elkoz
closed
8 months ago
0
pip install proteinflow fails in Colab
#115
ardagoreci
closed
8 months ago
2
Fix splitting bug
#114
elkoz
closed
9 months ago
0
Add the option to exclude custom sequences
#113
elkoz
closed
9 months ago
0
Foldseek
#112
elkoz
closed
9 months ago
0
Fix ProteinLoader options
#111
elkoz
closed
9 months ago
0
Add options to visualizations + attributions
#110
elkoz
closed
10 months ago
0
Attribution request
#109
jonathanking
closed
10 months ago
2
Add IDs to ProteinEntry
#108
elkoz
closed
10 months ago
0
Fix more masking bugs
#107
elkoz
closed
11 months ago
0
Fix a masking bug
#106
elkoz
closed
11 months ago
0
Add options for masking
#105
elkoz
closed
11 months ago
0
Improve patching
#104
elkoz
closed
11 months ago
0
Add ligand loading and PyG support
#103
mawskay
closed
11 months ago
0
feat(loading): add ligand loading
#102
mawskay
closed
11 months ago
0
Fix bugs
#101
elkoz
closed
11 months ago
0
Fix bugs and improve visualization
#100
elkoz
closed
11 months ago
0
Add opacity
#99
elkoz
closed
11 months ago
0
Refactor new code
#98
elkoz
closed
11 months ago
0
Add more visualization options
#97
elkoz
closed
11 months ago
0
Add visualization functions
#96
elkoz
closed
11 months ago
0
Cluster split refactoring
#95
mawskay
closed
11 months ago
0
Refactor and improve
#94
elkoz
closed
11 months ago
0
Improve large files handling
#93
elkoz
closed
11 months ago
0
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