greenelab/ponyo issues and pull requests

#51 - Minor updates

Pull Request - State: closed - Opened by ajlee21 over 2 years ago - 1 comment

#50 - update ponyo version

Pull Request - State: closed - Opened by ajlee21 over 2 years ago - 2 comments

#49 - Clean up ponyo

Pull Request - State: closed - Opened by ajlee21 over 2 years ago - 2 comments

#48 - Allow user to specify intermediate file directories

Pull Request - State: closed - Opened by ajlee21 over 2 years ago - 1 comment

#47 - Add new simulation type

Pull Request - State: closed - Opened by ajlee21 over 2 years ago - 2 comments

#46 - Make base_dir input params

Pull Request - State: closed - Opened by ajlee21 over 2 years ago - 3 comments

#45 - Bump tensorflow from 1.15.4 to 2.7.2

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 4 comments
Labels: dependencies

#44 - Bump tensorflow from 1.15.4 to 2.6.4

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#43 - `basedir` set within function for `train_vae_modules.train_vae()`

Issue - State: closed - Opened by taylorreiter over 2 years ago - 3 comments

#42 - Bump tensorflow from 1.15.4 to 2.5.3

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments
Labels: dependencies

#41 - Bump tensorflow from 1.15.4 to 2.5.1

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 1 comment
Labels: dependencies

#40 - Split reconstruction and KL loss, and log them as metrics

Pull Request - State: closed - Opened by ben-heil over 3 years ago - 3 comments

#39 - Look into converting config file to pathlib

Issue - State: open - Opened by ajlee21 over 3 years ago

#38 - Add pretrained models

Issue - State: closed - Opened by ajlee21 over 3 years ago - 1 comment

#37 - Add new simulation that allows for unseen template experiment

Issue - State: closed - Opened by ajlee21 over 3 years ago - 1 comment

#36 - Update version of number of ponyo

Pull Request - State: closed - Opened by ajlee21 over 3 years ago - 1 comment

#35 - Address more ponyo issues

Pull Request - State: closed - Opened by ajlee21 over 3 years ago - 1 comment

#34 - Update readme and latent dim argument

Pull Request - State: closed - Opened by ajlee21 over 3 years ago - 1 comment

#33 - Vae Refactor

Pull Request - State: closed - Opened by ben-heil over 3 years ago - 1 comment

#32 - Minor software updates

Pull Request - State: closed - Opened by ajlee21 over 3 years ago

#31 - Bump tensorflow from 1.15.4 to 2.4.0

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#30 - Add a coveralls token to the repos secrets

Issue - State: closed - Opened by ajlee21 over 3 years ago - 1 comment

#29 - Refactor simulation

Pull Request - State: closed - Opened by ben-heil over 3 years ago - 2 comments

#28 - Ponyo won't install in python 3.9

Issue - State: closed - Opened by ben-heil over 3 years ago - 1 comment

#27 - Update description of config params

Issue - State: closed - Opened by ajlee21 over 3 years ago - 2 comments

#26 - Set latent dim using config params

Issue - State: closed - Opened by ajlee21 almost 4 years ago - 1 comment

#25 - Look into upgrading tensorflow to v2.x.x

Issue - State: closed - Opened by ajlee21 almost 4 years ago - 1 comment

#24 - Run on GPU

Issue - State: open - Opened by ajlee21 almost 4 years ago
Labels: enhancement

#23 - Convert to pytorch

Issue - State: open - Opened by ajlee21 almost 4 years ago
Labels: enhancement

#22 - Add function to set seeds

Issue - State: closed - Opened by ajlee21 almost 4 years ago

#21 - Create for loop wrapper for shift_template_experiment()

Issue - State: open - Opened by ajlee21 almost 4 years ago

#20 - Update ponyo simulations

Pull Request - State: closed - Opened by ajlee21 about 4 years ago - 1 comment

#19 - Remove numpy seed

Pull Request - State: closed - Opened by ajlee21 about 4 years ago - 3 comments

#18 - Update get_sample_id function to take metadata filename

Issue - State: closed - Opened by ajlee21 about 4 years ago - 1 comment
Labels: enhancement

#17 - shift_template_experiment() function in "simulate_expression_data.py" module

Issue - State: closed - Opened by dongbohu about 4 years ago - 1 comment
Labels: enhancement

#16 - Bump tensorflow from 1.13.1 to 1.15.4

Pull Request - State: closed - Opened by dependabot[bot] about 4 years ago - 1 comment
Labels: dependencies

#15 - actually run coveralls

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

#14 - add files created for pypi deployment to gitignore

Pull Request - State: closed - Opened by ajlee21 over 4 years ago

#13 - Bump tensorflow from 1.13.1 to 1.15.2

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 2 comments
Labels: dependencies

#12 - Add logo and update pip install requirements

Pull Request - State: closed - Opened by ajlee21 over 4 years ago - 1 comment

#11 - Test Code Coverage

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

#10 - Format files to prepare for pypi publish

Pull Request - State: closed - Opened by ajlee21 over 4 years ago - 4 comments

#9 - try random thing

Pull Request - State: closed - Opened by cgreene over 4 years ago - 1 comment

#8 - Add test notebooks and try to add tests to github actions

Pull Request - State: closed - Opened by ajlee21 over 4 years ago - 1 comment

#7 - Github Actions for linting fail when autofix = true

Issue - State: closed - Opened by miltondp over 4 years ago - 6 comments

#6 - Format files using flake8 and black

Pull Request - State: closed - Opened by ajlee21 over 4 years ago - 1 comment

#5 - Format files using flake8 and black

Pull Request - State: closed - Opened by ajlee21 over 4 years ago - 4 comments

#4 - said false, meant true

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

#3 - Update functions to use sample x gene input

Pull Request - State: closed - Opened by ajlee21 over 4 years ago - 7 comments

#2 - Linter Testing

Pull Request - State: closed - Opened by cgreene over 4 years ago - 1 comment

#1 - Init

Pull Request - State: closed - Opened by ajlee21 over 4 years ago - 2 comments

GitHub / greenelab/ponyo issues and pull requests