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greenelab
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pancancer-evaluation
Evaluating genome-wide prediction of driver mutations using pan-cancer data
BSD 3-Clause "New" or "Revised" License
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Plot results for neural network experiments, across all genes
#85
jjc2718
closed
10 months ago
15
Update sparsity figure + regenerate figshare data
#84
jjc2718
closed
1 year ago
5
Add README to optimizers sub-directory
#83
jjc2718
closed
1 year ago
0
Tweaks to figures for latest optimizer paper draft
#82
jjc2718
closed
1 year ago
1
SGD learning rate tuning + pytorch implementation, simulations
#81
jjc2718
closed
1 year ago
1
Generate paper figures and supplementary data
#80
jjc2718
closed
1 year ago
1
Optimizer comparison on stratified cross-validation data
#79
jjc2718
closed
1 year ago
1
Cancer type holdout performance analysis
#78
jjc2718
closed
1 year ago
1
Neural network parameter exploration experiments
#77
jjc2718
closed
1 year ago
1
TCGA -> CCLE neural network experiments
#76
jjc2718
closed
1 year ago
2
CCLE -> TCGA prediction experiments
#75
jjc2718
closed
1 year ago
1
Clean up LASSO plots + add shuffled baselines
#74
jjc2718
closed
1 year ago
1
More modular plotting code for LASSO range scripts
#73
jjc2718
opened
1 year ago
0
TCGA -> CCLE mutation prediction experiments
#72
jjc2718
closed
1 year ago
1
Rerun mutation prediction + compare optimizers
#71
jjc2718
closed
1 year ago
1
Quantiles vs. linear "bins" in LASSO range box plots
#70
jjc2718
opened
1 year ago
0
Tweak LASSO coefficient range to be more uniform
#69
jjc2718
opened
1 year ago
0
Sex prediction results + add sex covariate for MSI prediction
#68
jjc2718
closed
1 year ago
1
Microsatellite instability prediction across cancer types
#67
jjc2718
closed
1 year ago
1
Run LASSO range experiments for Vogelstein gene set
#66
jjc2718
closed
1 year ago
1
Start working on LASSO experiments across all genes
#65
jjc2718
closed
1 year ago
1
LASSO penalty range/model size experiments
#64
jjc2718
closed
1 year ago
1
CSD simulation experiments: parameter selection + domain addition
#62
jjc2718
closed
1 year ago
1
Linear model with CSD loss layer - initial implementation
#61
jjc2718
closed
1 year ago
1
Simulation of domain-specific data with shared signal
#60
jjc2718
closed
1 year ago
1
Drug response regression, cancer type holdout experiments
#59
jjc2718
closed
1 year ago
2
Drug response regression, stratified by cancer type
#58
jjc2718
closed
1 year ago
1
Liquid vs. solid cancer experiments
#57
jjc2718
closed
1 year ago
2
CCLE drug response classification, stratified by cancer type
#56
jjc2718
closed
1 year ago
1
Ridge regression and other small tweaks
#55
jjc2718
closed
1 year ago
1
CCLE mutation prediction
#54
jjc2718
closed
1 year ago
5
Mutation prediction outstanding issues/updates
#53
jjc2718
opened
1 year ago
0
F-statistic distribution heatmaps
#52
jjc2718
closed
1 year ago
1
CCLE data download script
#51
jjc2718
closed
1 year ago
1
Purity classification (above/below median)
#50
jjc2718
closed
1 year ago
1
Add more genes and random features baseline to cancer type experiments
#49
jjc2718
closed
1 year ago
1
Univariate feature selection, held-out cancer types
#48
jjc2718
closed
1 year ago
1
Univariate feature selection for stratified CV
#47
jjc2718
closed
1 year ago
1
Univariate correlation comparison
#46
jjc2718
closed
1 year ago
1
Feature stability experiments
#45
jjc2718
closed
2 years ago
1
Fix data download script
#44
jjc2718
closed
2 years ago
0
Domain adaptation across cancer types
#43
jjc2718
closed
2 years ago
0
Add cancer types to single-cancer mutation prediction models
#42
jjc2718
closed
3 years ago
2
Fix missing dimension reduction plots from previous PR
#41
jjc2718
closed
3 years ago
0
Positive control/cancer type holdout experiments follow-up
#40
jjc2718
closed
3 years ago
2
Dimension reduction in 95% of held-out data case
#39
jjc2718
closed
3 years ago
0
Look further into label imbalance
#38
jjc2718
opened
3 years ago
0
New cross-validation scheme + more positive control experiments
#37
jjc2718
closed
3 years ago
2
"Flip labels" positive control experiments
#36
jjc2718
closed
3 years ago
0
Add MCC/F1 metric (in addition to ROC/PR)
#35
jjc2718
closed
1 year ago
2
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