RasmussenLab/MOVE issues and pull requests

#102 - IndexError in tune_reconstruction task with Larger Datasets

Issue - State: open - Opened by delillo-florencia 20 days ago

#101 - Perturbations with categorical target data

Issue - State: open - Opened by bnglomics 4 months ago - 1 comment

#100 - ✨ Prodigy

Pull Request - State: closed - Opened by ri-heme 5 months ago

#99 - help with error

Issue - State: open - Opened by bnglomics 6 months ago - 4 comments

#98 - Developer

Pull Request - State: closed - Opened by enryH 8 months ago

#97 - numpy 2.0 update

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

#96 - Developer cont2

Pull Request - State: closed - Opened by enryH 8 months ago - 1 comment

#95 - Developer continuous v3

Pull Request - State: closed - Opened by enryH 8 months ago

#94 - Improvement: Reduce array size for storing differences for Bayes Factors

Issue - State: closed - Opened by enryH 9 months ago - 1 comment

#93 - 🔊 Warn user when a model is reused for the the latent task

Issue - State: open - Opened by enryH 9 months ago - 1 comment

#92 - add multiprocessing

Pull Request - State: open - Opened by LFT18 10 months ago - 6 comments

#91 - 🚑 Hot fix

Pull Request - State: closed - Opened by ri-heme about 1 year ago

#90 - 🐛 Developer hotfixes

Pull Request - State: closed - Opened by ri-heme about 1 year ago

#89 - ✨ MOVE update

Pull Request - State: open - Opened by ri-heme about 1 year ago

#88 - :sparkles: Allow turning off input scaling

Pull Request - State: closed - Opened by ri-heme over 1 year ago

#84 - Developer continuous

Pull Request - State: closed - Opened by mpielies over 1 year ago

#82 - 🚑 Fix syntax error

Pull Request - State: closed - Opened by ri-heme almost 2 years ago
Labels: bug

#81 - 🐛✨ Plotting fixes, flexible VAE inputs

Pull Request - State: closed - Opened by ri-heme almost 2 years ago
Labels: bug, enhancement

#80 - 💪🏽 Flexible VAE inputs

Pull Request - State: closed - Opened by ri-heme almost 2 years ago
Labels: enhancement

#79 - 📊 Plotting fixes

Pull Request - State: closed - Opened by ri-heme almost 2 years ago
Labels: bug, enhancement

#78 - NNFC Workshop

Issue - State: closed - Opened by ri-heme almost 2 years ago

#77 - Hotfix tune model

Pull Request - State: closed - Opened by ri-heme almost 2 years ago
Labels: bug

#76 - Shape of original_input and reconstruction do not match

Issue - State: closed - Opened by thorhennig almost 2 years ago - 1 comment
Labels: bug

#75 - 🐛 Hotfix NaN accuracy

Pull Request - State: closed - Opened by ri-heme almost 2 years ago
Labels: bug

#74 - Error during __tune_reconstruction: score in calculate_accuracy (metrics.py) cannot be calculated

Issue - State: closed - Opened by thorhennig almost 2 years ago - 3 comments
Labels: bug, good first issue

#73 - 🐛🔫 Developer debugging

Pull Request - State: closed - Opened by ri-heme almost 2 years ago

#72 - 🐛 Hotfix Python version

Pull Request - State: closed - Opened by ri-heme almost 2 years ago

#71 - :bug: Hotfix save results

Pull Request - State: closed - Opened by ri-heme about 2 years ago

#70 - 🚑 Hotfix zero

Pull Request - State: closed - Opened by ri-heme about 2 years ago
Labels: bug

#69 - 🚑 Hotfix zeros

Pull Request - State: closed - Opened by ri-heme about 2 years ago
Labels: bug

#68 - ✨ Allow only continous inputs

Pull Request - State: closed - Opened by ri-heme about 2 years ago

#67 - ✨ More informative results table

Pull Request - State: closed - Opened by ri-heme about 2 years ago

#66 - :bug: Update code that it would run on GPU

Pull Request - State: closed - Opened by valentas1 about 2 years ago

#65 - small tutorial updates

Pull Request - State: closed - Opened by enryH about 2 years ago - 4 comments

#64 - :bug: add missing dependencies

Pull Request - State: closed - Opened by enryH about 2 years ago

#63 - ♻️ 🎨 📝 Developer

Pull Request - State: closed - Opened by ri-heme about 2 years ago
Labels: documentation, enhancement, refactoring

#62 - ♻️ Refactor tune model stability

Pull Request - State: closed - Opened by ri-heme about 2 years ago

#61 - 📝 Documentation update

Pull Request - State: closed - Opened by ri-heme about 2 years ago

#60 - Update tutorial text

Issue - State: open - Opened by ri-heme about 2 years ago
Labels: documentation

#59 - GPU Training

Issue - State: closed - Opened by ri-heme about 2 years ago
Labels: enhancement

#58 - Developer continuous plots

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

#57 - Developer continuous plots

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#56 - 🧹 Clean-up

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#55 - Update nb tutorials

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#54 - :bug: Fix feature importance plot

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#53 - QoL changes

Issue - State: closed - Opened by ri-heme over 2 years ago - 2 comments
Labels: documentation, refactoring

#52 - 🧹 Clean up

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#51 - :bug: Fix dataloader creation

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#50 - Developer docstrings

Pull Request - State: closed - Opened by valentas1 over 2 years ago

#49 - ✨ 📌 Fix Hydra version, update read config method

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#48 - 👩🏽‍🏫 Update tutorial

Issue - State: open - Opened by ri-heme over 2 years ago
Labels: documentation

#47 - ♻️ Refactor tune model

Pull Request - State: closed - Opened by ri-heme over 2 years ago
Labels: refactoring

#46 - ♻️ Refactor tune model

Pull Request - State: closed - Opened by ri-heme over 2 years ago
Labels: refactoring

#45 - 🐛 Hotfix latent space

Pull Request - State: closed - Opened by ri-heme over 2 years ago
Labels: bug

#44 - ♻️ Refactor latent space analysis

Pull Request - State: closed - Opened by ri-heme over 2 years ago
Labels: refactoring

#43 - Expected MOVE tutorial runtime?

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

#42 - ♻️ Refactor analyze latents task

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#41 - Clean-up config files

Issue - State: closed - Opened by ri-heme over 2 years ago
Labels: refactoring

#40 - Re-structure module 4 (analyze latent)

Issue - State: closed - Opened by ri-heme over 2 years ago
Labels: refactoring

#39 - Remove number of samples from categorical shapes

Issue - State: closed - Opened by ri-heme over 2 years ago
Labels: refactoring

#38 - Use Hydra multirun mode to do optimization tasks

Issue - State: closed - Opened by ri-heme over 2 years ago
Labels: enhancement, refactoring

#37 - ✨ Bayesian approach

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#36 - Setting groups

Issue - State: open - Opened by simonrasmu over 2 years ago
Labels: enhancement

#35 - NA class is created even without NA in categorical data

Issue - State: closed - Opened by mpielies over 2 years ago - 2 comments
Labels: bug

#34 - 04_analyze_latent fails due to hardcoded values

Issue - State: closed - Opened by simonrasmu over 2 years ago
Labels: bug

#33 - Perturbations with continuous data

Issue - State: open - Opened by simonrasmu over 2 years ago
Labels: enhancement

#32 - Developer logging

Pull Request - State: closed - Opened by valentas1 over 2 years ago

#31 - 🎨 Format docstrings

Issue - State: closed - Opened by ri-heme over 2 years ago - 2 comments
Labels: documentation

#30 - 02_optimize_reconstruction write out results

Issue - State: closed - Opened by simonrasmu over 2 years ago - 1 comment

#29 - Two functions in 05_identify_associations does not work

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

#28 - 05_identify_associations: write results in tsv table format

Issue - State: closed - Opened by simonrasmu over 2 years ago

#27 - plot_reconstruction

Issue - State: closed - Opened by simonrasmu over 2 years ago - 1 comment

#26 - ✨ Bayesian approach + other changes

Pull Request - State: closed - Opened by ri-heme over 2 years ago

#25 - Make each module output to its own folder

Issue - State: closed - Opened by simonrasmu over 2 years ago - 1 comment

#24 - Identify associations writes out thousands of files

Issue - State: closed - Opened by simonrasmu over 2 years ago - 4 comments

#23 - Add more user info on step 05

Issue - State: closed - Opened by simonrasmu over 2 years ago - 1 comment

#22 - Best latent representation

Issue - State: open - Opened by simonrasmu over 2 years ago
Labels: question

#21 - stability plots x-labels can't be seen

Issue - State: closed - Opened by simonrasmu over 2 years ago - 1 comment

#20 - Simplify plotting functions

Issue - State: closed - Opened by simonrasmu over 2 years ago

#19 - tuning_stability.yaml

Issue - State: closed - Opened by simonrasmu over 2 years ago - 6 comments

#18 - Add Bayesian decision method as an option for identify_associations

Issue - State: closed - Opened by simonrasmu over 2 years ago
Labels: enhancement

#17 - Rename 05_identify_drug_assosiation

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

#16 - Reduce memory of step 05

Issue - State: closed - Opened by simonrasmu over 2 years ago - 3 comments
Labels: bug

#15 - Use of log-file

Issue - State: closed - Opened by simonrasmu over 2 years ago - 1 comment
Labels: enhancement

#14 - defining entrypoints

Issue - State: closed - Opened by enryH over 2 years ago - 8 comments

#13 - `requirments.txt`

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

#12 - Increment the version for pypi package

Pull Request - State: closed - Opened by valentas1 over 2 years ago

#11 - Developer

Pull Request - State: closed - Opened by valentas1 over 2 years ago

#10 - MOVE package update

Pull Request - State: closed - Opened by valentas1 over 2 years ago

#9 - 📦 Set up package and configuration

Pull Request - State: closed - Opened by ri-heme almost 3 years ago
Labels: enhancement

#8 - Set up configuration system

Issue - State: closed - Opened by ri-heme almost 3 years ago
Labels: enhancement

#7 - Set-up CI workflow

Issue - State: open - Opened by ri-heme almost 3 years ago - 1 comment
Labels: ci

#6 - Adhere to PEP8 style guide

Issue - State: closed - Opened by ri-heme almost 3 years ago
Labels: refactoring

#5 - Organize code

Issue - State: closed - Opened by ri-heme almost 3 years ago
Labels: enhancement

#4 - ✨ Maize dataset tutorial

Pull Request - State: closed - Opened by ri-heme almost 3 years ago

#3 - Update README.md

Pull Request - State: closed - Opened by simonrasmu almost 3 years ago

#2 - add a folder with random data for github

Pull Request - State: closed - Opened by valentas1 almost 3 years ago

#1 - Create LICENSE

Pull Request - State: closed - Opened by simonrasmu almost 3 years ago

GitHub / RasmussenLab/MOVE issues and pull requests