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OATML-Markslab
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Tranception
Official repository for the paper "Tranception: Protein Fitness Prediction with Autoregressive Transformers and Inference-time Retrieval"
MIT License
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A tutorial to help out first-time users
#31
alptaciroglu
opened
2 months ago
1
TransceptEVE
#30
twidatalla
closed
6 months ago
1
How to extract position-specific or global embeddings for a protein sequence to use in a related task?
#29
adalisan
closed
11 months ago
2
Update score_tranception_proteingym.py
#28
Tpan1039-ui
closed
3 months ago
0
Issues arise when scoring a very small number of mutations
#27
Tpan1039-ui
opened
1 year ago
1
Could you please provide training script
#26
Layne-Huang
opened
1 year ago
0
Make Tranception pip installable
#25
by256
closed
1 year ago
0
How to retrain EVE to predict scores of all mutants?
#24
brycejoh16
closed
1 year ago
1
Would you have any plan to show your train and eval data?
#23
jackhu3301
opened
1 year ago
1
add faster msa preprocessing
#22
RaphaelBouvet
opened
1 year ago
0
Wrong in the calculation of MSA_log_prior?
#21
LTEnjoy
closed
1 year ago
0
Huggingface Interface appears to be broken
#20
FedericoV
opened
1 year ago
1
Identify damaging mutations?
#19
hamidghaedi
closed
11 months ago
2
Bug in creating single mutants ( index)
#18
smilenaderi
closed
1 year ago
1
Question about the number of DMS
#17
violet-sto
closed
1 year ago
1
Obtain MSA Transformer ensemble
#16
RaphaelBouvet
closed
1 year ago
2
Exact Usage of `hhfilter`
#15
brucejwittmann
closed
1 year ago
4
Fix uninitialized `fused_shift_log_probas` in `forward()`
#14
aaronkollasch
closed
1 year ago
3
MSA Acquisition for New Proteins
#13
NOforgetQY
closed
1 year ago
5
How to reproduce Table 2 from results files
#12
hnisonoff
closed
2 years ago
4
How should I use the class MSA_processing to generate new MSA weight files?
#11
NOforgetQY
closed
2 years ago
2
Question about discrepancy with ProGen2 paper results on indel datasets
#10
timt51
closed
2 years ago
2
Question about non-focus columns and DMS scores
#9
hnisonoff
closed
2 years ago
7
How could I gain the raw MSA with every complete sequence in Tranception?
#8
lsw9803
closed
2 years ago
1
interpretation of scores in B.5 - Table 10
#7
adrienchaton
closed
2 years ago
4
ProteinGym does not contain wildtype fitness values
#6
StephanHeijl
closed
2 years ago
4
Invalid UniProt ID RL401_YEAST
#5
agitter
closed
2 years ago
3
Raw DMS scores not available for download
#4
StephanHeijl
closed
2 years ago
2
how to calculate the fitness of a protein equivalent to ESM log_likelihood score script?
#3
avilella
closed
2 years ago
2
DMS directionality
#2
rmrao
closed
2 years ago
4
MSAs
#1
christophfeinauer
closed
2 years ago
10