Skip to content

1.1.0
Compare
Choose a tag to compare
@KatyBrown KatyBrown released this 18 Jan 12:57
· 82 commits to master since this release
v1.1.0
9886470
This commit was created on GitHub.com and signed with GitHub’s verified signature. The key has expired.
GPG key ID: 4AEE18F83AFDEB23
Expired
Verified
Learn about vigilant mode.

A detailed description of all changes associated with the release is in the attached PDF.
CIAlign_v1.1.0_Improvements.pdf

Briefly:
The “remove insertions” function now runs much faster, particularly when the maximum insertion size is very large
A new “crop divergent” function is now available, which allows the user to isolate the most conserved region of the alignment.
CIAlign can now generate position weight, position probability and position frequency matrices.
Users can now specify, using the retain functions, sequences which they would like CIAlign not to remove.
The plot_coverage function is now the plot_stats function and will generate three plots, showing coverage, Shannon entropy and information content per column.
Users can now extract part of an alignment based on their own coordinates, using the get_section function.
An additional colour palette is now available for mini alignments and sequence logos,
It is now possible to convert T to U in alignments, as well as U to T.
The CIAlign manual is now hosted at ReadTheDocs - https://cialign.readthedocs.io/ - and is more readable and comprehensive.
Unit test coverage is now 100% across all module files (excluding import lines and logging)

What's Changed

Full Changelog: v1.0.17...v1.1.0

Contributors

KatyBrown
Assets 2
Loading