agemagician/ProtTrans
ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using Transformers Models.
Jupyter NotebookAFL-3.0
Issues
- 0
About prot_t5
#154 opened by yelou2022 - 1
PT5_LoRA_Finetuning_per_prot.ipynb - memory accumulation during validation
#153 opened by Fredditeddy - 1
How was ProtT5 trained?
#148 opened by Sspandau - 2
Feature order
#149 opened by abelavit - 3
IndexError in generate protein notebook
#152 opened by ekiefl - 4
What is the `./protT5` directory in the Colab example?
#150 opened by ekiefl - 1
- 2
ProtT5 model generate
#147 opened by BSharmi - 3
Generating embedding from finetuned model
#146 opened by abelavit - 3
- 2
Error while running Finetuning script
#143 opened by suresh-pokharel - 2
- 2
per_residue and per_protein embedding comparison
#142 opened by madnessfish - 5
- 5
- 23
Can we use ProtBert to fine-tune masking language model? (inquiry to memory friendly pretrained model)
#112 opened by gundalav - 7
Finetuning ProtT5
#113 opened by BSharmi - 3
Sanity check of inputs
#115 opened by BSharmi - 15
I want the prottrans training code.
#118 opened by miderxi - 1
Formatting for ProtT5 labels
#137 opened by exs-fdreyer - 2
Fine tuning with Lora on multi GPU
#136 opened by BSharmi - 2
Fine-tuning smaller models in half-precision
#135 opened by pawel-rezo - 2
- 1
Sequence extraction from embedding representation
#129 opened by IliasGewr - 3
Gene Ontology (GO) prediction
#126 opened by JNU-luyi - 1
New364 dataset
#125 opened by SamarthGarg09 - 5
Training a T5 tokenizer
#119 opened by ideasbyjin - 1
- 2
How to prevent the residue X to be generated
#109 opened by gundalav - 4
- 9
Error for fine tuning T5: ModuleNotFoundError: No module named 'mpi4py'
#133 opened by yzhang-github-pub - 2
Tokenising multi-chain proteins
#131 opened by exs-hkenlay - 6
Speed up via xformers
#120 opened by mortonjt - 1
Improvements on Quick Start in README
#127 opened by delta2323 - 6
Sequence processing
#123 opened by BSharmi - 1
- 1
Fine-Tune T5 for Residue Classification
#117 opened by MoaazK - 16
- 4
FineTuning of Model for Allosteric Site Prediction
#106 opened by MoaazK - 2
- 1
Sanity check of data processing
#114 opened by BSharmi - 3
- 1
1D amino acid sequence generation from encoder output
#105 opened by bg-uni - 3
ProtT5 Fine-Tuning
#104 opened by TheBil99 - 1
can protT5 be used to generate embeddings for sequence fragments rather than full sequences?
#101 opened by zhuzihan728 - 1
Bert pretraining approach
#100 opened by shu1273 - 3
- 4
Generating protein sequences
#98 opened by gitwangxf - 2
Exception: Label encoder found an unknown label.
#103 opened by skr3178 - 2
can't set attribute
#102 opened by skr3178