agemagician ProtTrans issues

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.

Academic Free License v3.0

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issues

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IndexError in generate protein notebook

#152 ekiefl opened 2 weeks ago
3
What was the pretraining split for the ProtT5-UniRef50 model?

#151 speydril opened 2 weeks ago
1
What is the `./protT5` directory in the Colab example?

#150 ekiefl closed 1 week ago
4
Feature order

#149 abelavit opened 2 months ago
2
How was ProtT5 trained?

#148 Sspandau opened 2 months ago
1
ProtT5 model generate

#147 BSharmi opened 3 months ago
2
Generating embedding from finetuned model

#146 abelavit opened 3 months ago
3
Issue running PT5_LoRA_Finetuning_per_residue_reg.ipynb

#145 abelavit closed 3 months ago
3
(Question) Can I use this for protein homology to UniRef50?

#144 jolespin opened 3 months ago
2
Error while running Finetuning script

#143 suresh-pokharel closed 3 months ago
2
per_residue and per_protein embedding comparison

#142 madnessfish closed 4 months ago
2
Link to finetune colab and license info

#141 RSchmirler closed 4 months ago
0
Added link to Colab version

#140 RSchmirler closed 5 months ago
0
Fix full precision casting on cpu

#139 li-yq closed 5 months ago
1
Mixed-precision and Preprint link

#138 RSchmirler closed 6 months ago
0
Formatting for ProtT5 labels

#137 exs-fdreyer closed 7 months ago
1
Fine tuning with Lora on multi GPU

#136 BSharmi closed 7 months ago
2
Fine-tuning smaller models in half-precision

#135 pawel-rezo closed 7 months ago
2
Error in Generation of Embeddings from list of sequences via ProtT5

#134 amalislam675 opened 8 months ago
5
Error for fine tuning T5: ModuleNotFoundError: No module named 'mpi4py'

#133 yzhang-github-pub closed 8 months ago
9
Added LoRA per residue regression

#132 RSchmirler closed 8 months ago
0
Tokenising multi-chain proteins

#131 exs-hkenlay closed 8 months ago
2
RuntimeError: "addmm_impl_cpu_" not implemented for 'Half'

#130 Mjvolk3 closed 8 months ago
2
Sequence extraction from embedding representation

#129 IliasGewr closed 8 months ago
1
Fix quick start

#128 mheinzinger closed 10 months ago
0
Improvements on Quick Start in README

#127 delta2323 closed 10 months ago
1
Gene Ontology (GO) prediction

#126 JNU-luyi closed 8 months ago
3
New364 dataset

#125 SamarthGarg09 closed 8 months ago
1
Adding LoRA Finetuning Notebooks

#124 RSchmirler closed 11 months ago
0
Sequence processing

#123 BSharmi closed 11 months ago
6
Availability of Seq2Seq Autoencoder Models for Protein Sequences

#122 khokao closed 1 year ago
2
OSError: Can't load tokenizer for 'Rostlab/prot_t5_xl_uniref50'

#121 moonhuwaa closed 11 months ago
1
Speed up via xformers

#120 mortonjt opened 1 year ago
6
Training a T5 tokenizer

#119 ideasbyjin closed 8 months ago
5
I want the prottrans training code.

#118 miderxi closed 8 months ago
15
Fine-Tune T5 for Residue Classification

#117 MoaazK closed 11 months ago
1
Multi-Mask Inference in ProtBert via HF Pipeline Function

#116 gundalav closed 8 months ago
1
Sanity check of inputs

#115 BSharmi closed 11 months ago
3
Sanity check of data processing

#114 BSharmi closed 1 year ago
1
Finetuning ProtT5

#113 BSharmi closed 1 year ago
7
Can we use ProtBert to fine-tune masking language model? (inquiry to memory friendly pretrained model)

#112 gundalav closed 11 months ago
23
How to Fine-tune Rostlab/prot_t5_xl_uniref50 Model for Sequence Generation

#111 gundalav closed 11 months ago
5
ZeroDivisionError when running prott5_embedder.py

#110 wojciech-galan closed 1 year ago
3
How to prevent the residue X to be generated

#109 gundalav closed 8 months ago
2
Questions for generating sequence using ProtXLNet pertained-model

#108 gundalav closed 8 months ago
4
can i using pretraining for some regression problems?

#107 morestart closed 11 months ago
16
FineTuning of Model for Allosteric Site Prediction

#106 MoaazK closed 11 months ago
4
1D amino acid sequence generation from encoder output

#105 bg-uni closed 1 year ago
1
ProtT5 Fine-Tuning

#104 TheBil99 closed 1 year ago
3
Exception: Label encoder found an unknown label.

#103 skr3178 closed 1 year ago
2