Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

add ProteinsX dataset classes #204

Open
wants to merge 35 commits into
base: master
Choose a base branch
from
Open

add ProteinsX dataset classes #204

wants to merge 35 commits into from

Conversation

a-r-j
Copy link
Owner

@a-r-j a-r-j commented Aug 2, 2022

Reference Issues/PRs

Adds dataloaders for the following built in datasets: #13

  • PROTEINS_METAL
  • PROTEINS_NUCLEIC
  • PROTEINS_LIGANDS
  • PROTEINS_NUCLEOTIDES

What does this implement/fix? Explain your changes

What testing did you do to verify the changes in this PR?

  • Local testing.

Pull Request Checklist

  • Added a note about the modification or contribution to the ./CHANGELOG.md file (if applicable)
  • Added appropriate unit test functions in the ./graphein/tests/* directories (if applicable)
  • Modify documentation in the corresponding Jupyter Notebook under ./notebooks/ (if applicable)
  • Ran python -m py.test tests/ and make sure that all unit tests pass (for small modifications, it might be sufficient to only run the specific test file, e.g., python -m py.test tests/protein/test_graphs.py)
  • Checked for style issues by running black . and isort .

@codecov-commenter
Copy link

Codecov Report

Merging #204 (2db8ce2) into master (8123f42) will increase coverage by 6.56%.
The diff coverage is 41.53%.

@@            Coverage Diff             @@
##           master     #204      +/-   ##
==========================================
+ Coverage   40.27%   46.83%   +6.56%     
==========================================
  Files          48       93      +45     
  Lines        2811     5647    +2836     
==========================================
+ Hits         1132     2645    +1513     
- Misses       1679     3002    +1323     
Impacted Files Coverage Δ
graphein/grn/parse_trrust.py 37.77% <ø> (ø)
graphein/ml/datasets/proteins_x.py 0.00% <0.00%> (ø)
graphein/ml/diffusion.py 0.00% <0.00%> (ø)
graphein/ppi/edges.py 100.00% <ø> (ø)
graphein/ppi/graph_metadata.py 0.00% <ø> (ø)
graphein/ppi/graphs.py 54.34% <ø> (ø)
graphein/ppi/parse_biogrid.py 75.00% <ø> (ø)
graphein/ppi/visualisation.py 0.00% <0.00%> (ø)
graphein/protein/analysis.py 0.00% <0.00%> (ø)
graphein/protein/edges/intramolecular.py 22.68% <0.00%> (ø)
... and 87 more

Help us with your feedback. Take ten seconds to tell us how you rate us. Have a feature suggestion? Share it here.

@sonarcloud
Copy link

sonarcloud bot commented Aug 8, 2022

SonarCloud Quality Gate failed.    Quality Gate failed

Bug A 0 Bugs
Vulnerability A 0 Vulnerabilities
Security Hotspot A 2 Security Hotspots
Code Smell A 6 Code Smells

No Coverage information No Coverage information
3.5% 3.5% Duplication

@sonarcloud
Copy link

sonarcloud bot commented Sep 19, 2022

SonarCloud Quality Gate failed.    Quality Gate failed

Bug A 0 Bugs
Vulnerability A 0 Vulnerabilities
Security Hotspot E 13 Security Hotspots
Code Smell A 6 Code Smells

No Coverage information No Coverage information
3.5% 3.5% Duplication

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

None yet

2 participants