Clinker

Latest version: v0.0.30

Safety actively analyzes 682387 Python packages for vulnerabilities to keep your Python projects secure.

Scan your dependencies

Page 4 of 5

0.0.12

* Fix translations for reverse strand CDS features in GFF files
* Fix crash related to saving empty gene features

0.0.11

Hotfix for locus resizing bug in Chromium based browsers

0.0.10

* Added ability to draw genes unscaled without intergenic gaps (17)
* Added toggle for drawing links as lines instead of boxes
* Added toggle for straight/curved links
* Added toggle for colouring links by similarity group colour, not identity
* Added multiprocessing for cluster alignments using `-j/--jobs` flag (22)
* Added GFF3/FASTA parser (10)
* `clinker` now looks for file extensions: GenBank = .gb, .gbk, .genbank, .gbf or .gbff, GFF = .gtf, .gff, .gff3, FASTA = .fa, .faa, .fna, .fsa, .fasta
* Fixed some invalid SVG tags

0.0.9

Minor update to fix gene colours not changing when choosing colours from legend entries

0.0.8

- Reworked simlarity grouping (https://github.com/gamcil/clustermap.js/commit/d44f094734042deeb6e9c30f396eb130fe3954cd)
- Groups now shown in gene tooltips
- More gene qualifiers are saved and shown in gene tooltips
- Added ability to change gene labels in bulk from sidebar (https://github.com/gamcil/clinker/issues/6)
- Added ability to show similarity scores on gene links

0.0.7

- Added session serialisation using `-s/--session` flag. Sessions can be loaded alongside new file paths to add them to the session without redoing all alignments
- Extended list of valid gene name qualifiers (fixes 4)
- Use uuid4 to generate object identifiers, not incrementing integers
- Added right-click menu to gene polygons for changing labels manually (6)
- Fixed bug in cluster dragging where clusters would go below scale bar
- Added --use_file_order argument so cluster order can be determined by input rather than hierarchical clustering (15)
- Added bioRxiv citation to web app

Page 4 of 5

© 2024 Safety CLI Cybersecurity Inc. All Rights Reserved.