antigenomics tcr-pmhc-study issues

antigenomics / tcr-pmhc-study

Mining TCR:pMHC structural data

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New paper

#49 mikessh opened 5 years ago
0
More data - 3

#48 mikessh opened 5 years ago
0
More data - 2

#47 mikessh opened 6 years ago
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Recent data TCR-neoantigen (4 structures)

#46 mikessh opened 6 years ago
0
More data

#45 mikessh opened 6 years ago
2
Maybe missed paper

#44 mikessh opened 7 years ago
0
Complexes that we fail to extract CDR1-3s

#43 mikessh opened 7 years ago
1
Add meaningful names for MHC allele annotation

#42 mikessh opened 7 years ago
1
Move issues

#41 vadimnazarov closed 7 years ago
0
Complex annotation patching

#40 mikessh opened 7 years ago
0
Known complexes with covalently linked peptide/ peptide not in separate chain

#39 mikessh opened 7 years ago
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Position weight matrix per cluster

#38 vadimnazarov closed 7 years ago
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Visualisation of motifs from Conv nets

#37 vadimnazarov closed 7 years ago
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Better folds for cross validations

#36 vadimnazarov closed 7 years ago
0
CNN + RNN

#35 vadimnazarov closed 7 years ago
1
Embeddings

#34 vadimnazarov closed 7 years ago
0
CNN models

#33 vadimnazarov closed 7 years ago
0
New metrics

#32 vadimnazarov closed 7 years ago
0
Leave-K-out cross validation for small number of TCRs

#31 vadimnazarov closed 7 years ago
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Fix a bug in clustering

#30 vadimnazarov closed 7 years ago
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Proportions instead of differences for delta models

#29 vadimnazarov closed 7 years ago
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Check if models work on reversed sequences

#28 vadimnazarov closed 7 years ago
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Two-way model on differences in coordinates

#27 vadimnazarov closed 7 years ago
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Re-compare all models

#26 vadimnazarov closed 7 years ago
0
Fix bootstrap_cdr

#25 vadimnazarov closed 7 years ago
0
one+onehot features

#24 vadimnazarov closed 7 years ago
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Try RNNs

#23 vadimnazarov closed 7 years ago
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Fading weights on clusters

#22 vadimnazarov closed 7 years ago
0
Comments + text about imputation

#21 vadimnazarov opened 7 years ago
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Simple model with distances between the object and clusters

#20 vadimnazarov closed 7 years ago
1
Impute pairwise amino acid contact probability/energy coefficients

#19 mikessh closed 7 years ago
0
Smooth contact heatmap in simple model

#18 mikessh opened 7 years ago
0
Clustering + explore TCR closeness to clusters

#17 vadimnazarov closed 7 years ago
0
Remove non-canonical from putative

#16 vadimnazarov closed 7 years ago
0
Parameter selection

#15 mikessh closed 7 years ago
1
The putative data has CDRs from the real data

#14 vadimnazarov closed 7 years ago
2
Can we double the data by mirroring the Y-axis?

#13 vadimnazarov closed 7 years ago
2
Naive approach to loops

#12 vadimnazarov closed 7 years ago
1
Iterative approach to loops

#11 vadimnazarov closed 7 years ago
1
EDA on the new loop data

#10 vadimnazarov closed 7 years ago
3
TODO

#9 mikessh opened 7 years ago
0
Problems in "final.annotations.txt"

#8 glennerad opened 7 years ago
4
errors in final.annotations.txt

#7 glennerad opened 7 years ago
0
Something strange in the Rmd file when FRs are the input file

#6 vadimnazarov opened 7 years ago
1
Update README.md

#5 vadimnazarov closed 7 years ago
0
Unnecessary column tcr_j_allele in the final.annotations.txt

#4 vadimnazarov opened 7 years ago
0
Get affinity data

#3 mikessh opened 7 years ago
4
Better annotation

#2 mikessh opened 7 years ago
0
Update structure analysis

#1 mikessh opened 7 years ago
0