a-r-j commented 2 years ago

Reference Issues/PRs

Adds updates and improvements to project documentation.

A few assorted fixes identified during doc improvement.

Delaunay Triangulation computed over all atoms by default. Adds an option to restrict it to certain atom types.
Adds plotly-based visualisation for PPI Graphs
Minor fixes to stability of RNA Graph Plotting
add tolerance parameter to add_atomic_edges

Breaking changes

Refactor RNA Graph constants from graphein.rna.graphs to graphein.rna.constants

What does this implement/fix? Explain your changes

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

codecov-commenter commented 2 years ago

Codecov Report

Merging #119 (28d5b2d) into master (8123f42) will increase coverage by 1.90%. The diff coverage is 42.85%.

:exclamation: Current head 28d5b2d differs from pull request most recent head 59bdaa7. Consider uploading reports for the commit 59bdaa7 to get more accurate results

@@            Coverage Diff             @@
##           master     #119      +/-   ##
==========================================
+ Coverage   40.27%   42.17%   +1.90%     
==========================================
  Files          48       52       +4     
  Lines        2811     3246     +435     
==========================================
+ Hits         1132     1369     +237     
- Misses       1679     1877     +198

Impacted Files	Coverage Δ
graphein/grn/parse_trrust.py	`37.77% <ø> (ø)`
graphein/ml/conversion.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/features/sequence/embeddings.py	`34.61% <ø> (-1.24%)`	:arrow_down:
... and 34 more

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