Ecosyste.ms: Issues

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GitHub / harmslab/epistasis issues and pull requests

#56 - error bars

Issue - State: open - Opened by Admire7494 8 months ago

#53 - Data type on phenotype

Issue - State: open - Opened by Shinezhuxin over 2 years ago - 1 comment

#52 - caught change not committed

Pull Request - State: closed - Opened by harmsm over 3 years ago

#51 - fixed broken set_params call in latest version of sklearn

Pull Request - State: closed - Opened by harmsm over 3 years ago

#50 - Fix setup.py bug and add github actions for testing+publishing

Pull Request - State: closed - Opened by Zsailer over 4 years ago

#49 - requires numpy before installing

Issue - State: open - Opened by Zsailer over 4 years ago

#48 - About non linear simulation

Issue - State: open - Opened by juychen almost 5 years ago

#47 - model.labels now spits out user-specified site_labels

Pull Request - State: closed - Opened by harmsm over 5 years ago

#46 - predictions to df

Pull Request - State: closed - Opened by Zsailer over 5 years ago

#45 - generate binary genotype again in genotypes_to_X

Pull Request - State: closed - Opened by Zsailer over 5 years ago

#44 - Use encoding table in GPMap to build coeffs.

Pull Request - State: closed - Opened by Zsailer over 5 years ago

#43 - Inheritance diagram.

Issue - State: open - Opened by Zsailer over 5 years ago - 3 comments

#42 - Slack app

Issue - State: closed - Opened by jbloom over 5 years ago - 2 comments

#41 - Change how spline coefficients are returned to spline epistasis models

Pull Request - State: closed - Opened by caelanradford over 5 years ago - 6 comments

#40 - relax requirements to minimal dependencies

Pull Request - State: closed - Opened by Zsailer almost 6 years ago - 1 comment

#39 - Better epistasis mapping

Pull Request - State: closed - Opened by Zsailer almost 6 years ago

#38 - requirements for installation?

Issue - State: closed - Opened by jbloom almost 6 years ago - 2 comments

#37 - Add documentation about X matrix

Pull Request - State: closed - Opened by Zsailer about 6 years ago

#36 - Predictions to df, CSV, Excel, etc.

Pull Request - State: closed - Opened by Zsailer about 6 years ago - 1 comment

#35 - add validate module

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#34 - Refactored Classifier module and allow for custom sklearn classifiers

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#33 - new setup.py

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#32 - add sorter method to spline

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#31 - Add Spline and simplify transforms

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#30 - Add elastic net model.

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#29 - Add Ridge model.

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#28 - Refactor API for Pipelines

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#27 - Add a Pipeline class

Pull Request - State: closed - Opened by Zsailer over 6 years ago

#26 - Ensemble model

Pull Request - State: closed - Opened by Zsailer almost 7 years ago - 1 comment

#25 - Methods to estimate the contribution of model piece

Pull Request - State: closed - Opened by Zsailer almost 7 years ago

#24 - Updating docs and changes to go with it

Pull Request - State: closed - Opened by Zsailer almost 7 years ago

#23 - Switch to LMFIT for nonlinear models

Pull Request - State: closed - Opened by Zsailer almost 7 years ago

#22 - Updating fixed model

Pull Request - State: closed - Opened by Zsailer almost 7 years ago

#21 - Make mixed model more flexible.

Pull Request - State: closed - Opened by Zsailer almost 7 years ago

#20 - Adding Lasso model

Pull Request - State: closed - Opened by Zsailer about 7 years ago

#19 - Sample weight

Pull Request - State: closed - Opened by Zsailer about 7 years ago

#18 - Changes to Bayesian sampler object

Pull Request - State: closed - Opened by Zsailer about 7 years ago

#17 - add model_specs attribute to models

Pull Request - State: closed - Opened by Zsailer about 7 years ago

#16 - Lightweight Bayesian sampler

Pull Request - State: closed - Opened by Zsailer about 7 years ago - 1 comment

#15 - Standardized X matrix, switched to pytest, added tests, and added docs

Pull Request - State: closed - Opened by Zsailer about 7 years ago - 2 comments

#14 - Refactor models, add tests, add classifier, add lnlikelihoods, and store model predictions

Pull Request - State: closed - Opened by Zsailer over 7 years ago - 1 comment

#13 - add module for estimating uncertainty

Pull Request - State: closed - Opened by Zsailer over 7 years ago

#12 - Follow scikit-learn API and add more documentation #11

Pull Request - State: closed - Opened by Zsailer almost 8 years ago

#11 - Follow scikit-learn API and add more documentation

Pull Request - State: closed - Opened by Zsailer almost 8 years ago

#10 - Couple nonlinear transform model with linear epistasis model

Issue - State: closed - Opened by Zsailer about 8 years ago - 1 comment
Labels: enhancement

#9 - Add a Gitter chat badge to README.md

Pull Request - State: closed - Opened by gitter-badger about 8 years ago

#8 - symbolic math module for nonlinear function manipulation

Issue - State: closed - Opened by Zsailer over 8 years ago
Labels: enhancement

#7 - easier epistasis plotting, interactive widget

Pull Request - State: closed - Opened by Zsailer over 8 years ago

#6 - Refactor the simulation code.

Pull Request - State: closed - Opened by Zsailer over 8 years ago

#5 - Refactor epistasis API

Pull Request - State: closed - Opened by Zsailer over 8 years ago

#4 - created bar_with_xbox function for publication epistasis figs

Pull Request - State: closed - Opened by harmsm over 9 years ago - 3 comments

#3 - Adding more flexible nonlinear models

Pull Request - State: closed - Opened by Zsailer over 9 years ago - 1 comment

#2 - Refactoring the mapping architecture to handle non-binary genotype spaces

Pull Request - State: closed - Opened by Zsailer over 9 years ago - 1 comment

#1 - Refactoring mapping objects

Pull Request - State: closed - Opened by Zsailer over 9 years ago - 2 comments