Spaces:
Build error
Build error
PascalNotin
commited on
Commit
•
e750e94
1
Parent(s):
ed68b5c
Fixed layout references
Browse files
app.py
CHANGED
@@ -108,10 +108,10 @@ def score_and_create_matrix_all_singles(sequence,mutation_range_start=None,mutat
|
|
108 |
#######################################################################################################################################
|
109 |
|
110 |
title = "Interactive in silico directed evolution with Tranception"
|
111 |
-
description = "Perform in silico directed evolution with Tranception to iteratively improve the fitness of a starting protein sequence one mutation at a time. At each step, the Tranception model computes the log likelihood ratios of all possible single amino acid substitution Vs the starting sequence, and outputs a fitness heatmap and recommandations to guide the selection of the mutation to apply. Note: The current version does not
|
112 |
-
article = "<p style='text-align: left'
|
113 |
-
article += "<
|
114 |
-
article += "<
|
115 |
examples=[
|
116 |
['ADRB2_HUMAN --> MGQPGNGSAFLLAPNGSHAPDHDVTQERDEVWVVGMGIVMSLIVLAIVFGNVLVITAIAKFERLQTVTNYFITSLACADLVMGLAVVPFGAAHILMKMWTFGNFWCEFWTSIDVLCVTASIETLCVIAVDRYFAITSPFKYQSLLTKNKARVIILMVWIVSGLTSFLPIQMHWYRATHQEAINCYANETCCDFFTNQAYAIASSIVSFYVPLVIMVFVYSRVFQEAKRQLQKIDKSEGRFHVQNLSQVEQDGRTGHGLRRSSKFCLKEHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQDNLIRKEVYILLNWIGYVNSGFNPLIYCRSPDFRIAFQELLCLRRSSLKAYGNGYSSNGNTGEQSGYHVEQEKENKLLCEDLPGTEDFVGHQGTVPSDNIDSQGRNCSTNDSLL', 1, 10, "Small", True],
|
117 |
['IF1_ECOLI --> MAKEDNIEMQGTVLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYDLSKGRIVFRSR', 1, None, "Medium", False],
|
|
|
108 |
#######################################################################################################################################
|
109 |
|
110 |
title = "Interactive in silico directed evolution with Tranception"
|
111 |
+
description = "Perform in silico directed evolution with Tranception to iteratively improve the fitness of a starting protein sequence, one mutation at a time. At each step, the Tranception model computes the log likelihood ratios of all possible single amino acid substitution Vs the starting sequence, and outputs a fitness heatmap and recommandations to guide the selection of the mutation to apply. Note: The current version does not leverage retrieval of homologs at inference time to increase fitness prediction performance."
|
112 |
+
article = "<p style='text-align: left'><b>Tranception: Protein Fitness Prediction with Autoregressive Transformers and Inference-time Retrieval</b></p>"
|
113 |
+
article += "<p style='text-align: left'> Pascal Notin, Mafalda Dias, Jonathan Frazer, Javier Marchena-Hurtado, Aidan N. Gomez, Debora S. Marks<sup>*</sup>, Yarin Gal<sup>*</sup>"
|
114 |
+
article += "<p style='text-align: left'> <a href='https://proceedings.mlr.press/v162/notin22a.html' target='_blank'>Paper</a> - <a href='https://github.com/OATML-Markslab/Tranception' target='_blank'>Code</a> </p>"
|
115 |
examples=[
|
116 |
['ADRB2_HUMAN --> MGQPGNGSAFLLAPNGSHAPDHDVTQERDEVWVVGMGIVMSLIVLAIVFGNVLVITAIAKFERLQTVTNYFITSLACADLVMGLAVVPFGAAHILMKMWTFGNFWCEFWTSIDVLCVTASIETLCVIAVDRYFAITSPFKYQSLLTKNKARVIILMVWIVSGLTSFLPIQMHWYRATHQEAINCYANETCCDFFTNQAYAIASSIVSFYVPLVIMVFVYSRVFQEAKRQLQKIDKSEGRFHVQNLSQVEQDGRTGHGLRRSSKFCLKEHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQDNLIRKEVYILLNWIGYVNSGFNPLIYCRSPDFRIAFQELLCLRRSSLKAYGNGYSSNGNTGEQSGYHVEQEKENKLLCEDLPGTEDFVGHQGTVPSDNIDSQGRNCSTNDSLL', 1, 10, "Small", True],
|
117 |
['IF1_ECOLI --> MAKEDNIEMQGTVLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYDLSKGRIVFRSR', 1, None, "Medium", False],
|