From a604feb0d8241649ead385602bd03e092809b945 Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Tue, 4 Jun 2024 16:35:40 +0100 Subject: [PATCH] JAL-4418 first development release for 2.11.4.0 - release notes for JAL-4159,JAL-4257,JAL-4386,JAL-4392,JAL-789 --- help/markdown/releases/release-2_11_4_0.md | 23 +++++++++++++++++++++++ help/markdown/whatsnew/whatsnew-2_11_4_0.md | 5 +++++ 2 files changed, 28 insertions(+) create mode 100644 help/markdown/releases/release-2_11_4_0.md create mode 100644 help/markdown/whatsnew/whatsnew-2_11_4_0.md diff --git a/help/markdown/releases/release-2_11_4_0.md b/help/markdown/releases/release-2_11_4_0.md new file mode 100644 index 0000000..0d4017a --- /dev/null +++ b/help/markdown/releases/release-2_11_4_0.md @@ -0,0 +1,23 @@ +--- +version: 2.11.4.0 +date: 2024-06-30 +channel: "develop" +--- + +## New Features + +- Consensus secondary structure visualization for alignments +- Calculate tree or PCA using secondary structure annotation +- Calculate PASiMap projection for sequences - ported by Thomas Morell ( U. Konstanz) +- allow adjustment of gap opening, extension, and score model for built in pairwise alignment + + +### development and deployment + + +## Issues Resolved + + +### New Known Issues + + diff --git a/help/markdown/whatsnew/whatsnew-2_11_4_0.md b/help/markdown/whatsnew/whatsnew-2_11_4_0.md new file mode 100644 index 0000000..b04074c --- /dev/null +++ b/help/markdown/whatsnew/whatsnew-2_11_4_0.md @@ -0,0 +1,5 @@ +The 2.11.4 series is the fourth in the minor-release trilogy planned for Jalview's 2.11 series. + +This release adds new capabilities for consensus and clustering of protein secondary structure, along with enhanced control of the display and analysis of secondary structure from different sources of 3D structure and prediction, and also features a new implementation of the PASiMap method for sequence clustering ([Su et al. 2022 Comp. Struc. Biotech.](https://doi.org/10.1016/j.csbj.2022.09.034)). + + -- 1.7.10.2