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Exploring evolutionary protein fitness landscapes
MIT License
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Paper
#117
ayushkarnawat
closed
3 years ago
0
Specify random_state when generating variants
#116
ayushkarnawat
opened
4 years ago
0
Save dataset param
#115
ayushkarnawat
opened
4 years ago
0
Only pin memory if using CUDA
#114
ayushkarnawat
opened
4 years ago
0
Remove hydrogens when mutating
#113
ayushkarnawat
opened
4 years ago
0
Rename frac_val to frac_valid
#112
ayushkarnawat
closed
4 years ago
0
Rename LSTMModel to SequenceLSTM
#111
ayushkarnawat
closed
4 years ago
0
Change frac_val to frac_valid in stratified_splitter
#110
ayushkarnawat
closed
4 years ago
0
Convert numpy gpr to torch gpr
#109
ayushkarnawat
closed
4 years ago
0
Torch version of gaussian process regressor
#108
ayushkarnawat
closed
4 years ago
0
Rename pytorch to torch
#107
ayushkarnawat
closed
4 years ago
1
Remove peptide builder
#106
ayushkarnawat
closed
4 years ago
0
Remove peptide builder
#105
ayushkarnawat
closed
4 years ago
0
[WIP] CbAS
#104
ayushkarnawat
closed
4 years ago
9
Reconstructed sequences
#103
ayushkarnawat
closed
4 years ago
0
[WIP] GPyTorch gaussian process regressor
#102
ayushkarnawat
opened
4 years ago
0
Rename channels_format
#101
ayushkarnawat
closed
4 years ago
1
Rename all instances of pytorch -> torch
#100
ayushkarnawat
closed
4 years ago
1
Vocab alphabetical ordering
#99
ayushkarnawat
closed
4 years ago
0
Remove vocab constraints for tokenizer
#98
ayushkarnawat
closed
4 years ago
0
[Discussion] Should save whole model or just state dict?
#97
ayushkarnawat
opened
4 years ago
0
<pad> and <unk> tokens should not be required
#96
ayushkarnawat
closed
4 years ago
1
Fix reconstructed sequences
#95
ayushkarnawat
closed
4 years ago
1
Vocab for sequence encoding
#94
ayushkarnawat
closed
4 years ago
0
Reconstructed sequences are poor
#93
ayushkarnawat
closed
4 years ago
0
Negative log likelihood (NLL) loss not decreasing
#92
ayushkarnawat
closed
4 years ago
0
No values to test in PyTorch VAE model
#91
ayushkarnawat
closed
4 years ago
1
Ignore padding index in negative log likelihood (NLL) loss
#90
ayushkarnawat
opened
4 years ago
0
VAE model with KL annealing
#89
ayushkarnawat
closed
4 years ago
0
[Preprocessing] One-hot encoding sequences
#88
ayushkarnawat
closed
4 years ago
1
[PyMOL] Verbose mode
#87
ayushkarnawat
opened
4 years ago
1
[PyMOL] Performance improvements
#86
ayushkarnawat
closed
4 years ago
0
[Feature] Pytorch LSTM model
#85
ayushkarnawat
closed
4 years ago
0
Use sufficient number of bins to stratify regression labels
#84
ayushkarnawat
closed
4 years ago
0
Stratified splitting on regression labels
#83
ayushkarnawat
closed
4 years ago
1
Load serialized files as float32 instead of float64
#82
ayushkarnawat
closed
4 years ago
0
Unable to load TFRecords file into torch dataset
#81
ayushkarnawat
closed
4 years ago
0
Convert ndarray's dtypes to their 32 counterparts
#80
ayushkarnawat
closed
4 years ago
0
[RuntimeError] Unable to train EmbeddedGCN model
#79
ayushkarnawat
closed
4 years ago
0
[Refactor] Serialization (saving + loading) of filetypes
#78
ayushkarnawat
closed
4 years ago
0
Grow `datum_bytes` if record is too big to read with DEFAULT_BUFFER_SIZE
#77
ayushkarnawat
closed
4 years ago
0
Unable to read tfrecords file
#76
ayushkarnawat
closed
4 years ago
0
Pytorch LSTM Model
#75
ayushkarnawat
closed
4 years ago
0
Unable to slice torch dataset(s)
#73
ayushkarnawat
closed
4 years ago
1
[Trainer] Offload training to trainer class
#72
ayushkarnawat
closed
4 years ago
1
PyTorch training callbacks
#71
ayushkarnawat
closed
4 years ago
0
EarlyStopping callback patience parameter
#70
ayushkarnawat
closed
4 years ago
0
[Hotfix] Compilation and forward pass through EmbeddedGCN model
#69
ayushkarnawat
closed
4 years ago
0
Attempting to train pytorch EmbeddedGCN model
#68
ayushkarnawat
closed
4 years ago
2
Change data format channels_first -> batch_first
#67
ayushkarnawat
closed
4 years ago
0
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