Earl Grey v4.5.0

1. Edge case fixes in TEstrainer
2. New earlGreyLibConstruct tool to generate de novo libraries for manual curation starting point

What's Changed

• Patches for v4.4.6 by @TobyBaril in #141

Full Changelog: v4.4.5...v4.5.0

Earl Grey v4.4.5

Fixing of edge cases in divergence calculator and issues with fai creation linked to multithreading.

Full Changelog: v4.4.4...v4.4.5

Earl Grey v4.4.4

Fixes to the divergence calculator - prevent crashing of script if plot is empty

Earl Grey v4.4.2

Bug fixes in the divergence calculator scripts.

Earl Grey v4.4.1

• Updated divergence calculator with fancy plots and a summary table showing TE divergence estimates by family (can be found in summaryFiles at the end of a successful run
• New experimental earlGreyLibConstruct script: generate a de novo TE library and BEAT it, but skip the annotation steps. Useful for those pangenome peeps out there, as well as those that want to create libraries on an individual-level before combining, manually curating, and then annotating with a final library later on.

Earl Grey v4.4.0

• Updates to the TEstrainer pipeline due to updates in required python packages
• Updates to the divergence pipeline due to changes in dependencies

Earl Grey v4.3.0

What's Changed

• Patches for Release 4.3.0 by @TobyBaril in #114

Full Changelog: v4.2.4...v4.3.0

Earl Grey v4.2.4

Small patches for stability
updates to readme

v4.2.3

• Patch fixes on new divergence plots

Full Changelog: v4.2.2...v4.2.3

Earl Grey v4.2.2

What's Changed

• Version 4.2.0 - Increased Efficiency and Patch Fixes by @TobyBaril in #101
• 102 bug when using soft link to genome by @TobyBaril in #103

Full Changelog: v4.1.1...v4.2.2