jvivian/gene-outlier-detection
A Bayesian model for identifying gene expression outliers for individual single samples (N-of-1) when compared to a cohort of background datasets.
Python
Issues
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installation error
#79 opened by bschilder - 1
Release 1.0
#70 opened by jvivian - 0
Make compatible with PyMC3 v3.8
#75 opened by jvivian-atreca - 2
Vectorize model
#76 opened by jvivian - 1
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Pin PyMC3 to 3.7 for PyPi
#71 opened by jvivian-atreca - 1
Expression Metrics and Concordance with Datasets
#68 opened by eyzhao - 0
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Add gelman-rubin statistic to _run_info
#65 opened by jvivian - 0
Change t-fit to return a DataFrame
#64 opened by jvivian - 2
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Expose `tune` step to user
#59 opened by jvivian - 0
Don't save pkl by default, add switch
#60 opened by jvivian - 1
Employ heuristic when p-values do not converge
#20 opened by jvivian - 0
Rewrite library as a class
#53 opened by jvivian - 0
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Normalize epsilon by standard deviation
#51 opened by jvivian - 0
Move student-T fits to new function
#49 opened by jvivian - 0
Standardize notation
#48 opened by jvivian - 0
Make fancy output plots of genes
#50 opened by jvivian - 1
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Relax epsilon parameter prior
#42 opened by jvivian - 0
Fix _run_info output
#43 opened by jvivian - 0
- 1
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Save run command to _info
#38 opened by jvivian - 0
Replace Normal R.V. for expression with StudentT
#36 opened by jvivian - 0
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Add traceplot values to output
#33 opened by jvivian - 0
Move _<files> to subdir _info
#34 opened by jvivian - 0
Fix terrible columns in `weights.tsv`
#30 opened by jvivian - 0
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Address coverage holes in tests
#29 opened by jvivian - 0
Fix theano error during traceplot import
#26 opened by jvivian - 0
Don't save weights if `n_bg` == 1
#23 opened by jvivian - 0
Fix theano module bug for base_compiledir
#24 opened by jvivian - 0
Theano base_compiledir not working as intended
#21 opened by jvivian - 0
Improve CLI and help messages
#17 opened by jvivian - 0
Add tests to cover run and iter_run in main.py
#15 opened by jvivian - 2
Update protocol plot
#12 opened by jvivian - 0
Fix pearson correlation bug
#13 opened by jvivian - 0
Add global runtime
#10 opened by jvivian - 0
Add deployment to Travis
#8 opened by jvivian - 1
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Improve test coverage
#5 opened by jvivian - 0