Merge pull request #33 from hgb-bin-proteomics/develop

MS Annika 3.0.7 release

Author: michabirklbauer

HISTORY.md

@@ -1,5 +1,15 @@
 # History
 
+## MS Annika 3.0 v3.0.7
+
+- Release date: 9. April 2025
+- Supported Proteome Discoverer versions: 3.1, 3.2
+- Changes:
+  - Minor:
+    - Upgrade to Net8.0 (only for Proteome Discoverer 3.2)
+    - Support for custom digestion rules and multi-digestion workflows
+    - Removed xiVIEW Exporter node, it's recommended to use [MS Annika exporters](https://github.com/hgb-bin-proteomics/MSAnnika_exporters) instead
+
 ## MS Annika 3.0 v3.0.5
 
 - Release date: 2. December 2024

README.md

@@ -1,7 +1,18 @@
 # MS Annika
 
+<img src="logo/annika_logo.png" align="left" width="175px"/>
+
 MS Annika is a crosslink search engine based on [MS Amanda](https://dx.doi.org/10.1021/pr500202e), aimed at identifying crosslinks of cleavable and non-cleavable crosslinkers from MS2 and MS3 spectra.
 
+MS Annika supports identification of protein-protein crosslinks from a variety of different cross-linking reagents, including cleavable
+and non-cleavable crosslinkers, and various acquisition workflows such as CID/HCD/stepped-HCD MS2 and MS2-MS3 acquisition.
+
+MS Annika features an efficient algorithm for crosslink identification that allows for analysis of proteome-wide studies of both cleavable and non-cleavable crosslinkers on standard computer hardware.
+
+MS Annika comes as user-friendly plugin for the proteomics platform
+[Proteome Discover](https://www.thermofisher.com/at/en/home/industrial/mass-spectrometry/liquid-chromatography-mass-spectrometry-lc-ms/lc-ms-software/multi-omics-data-analysis/proteome-discoverer-software.html)
+with a graphical user interface for easy setup and extensive documentation for customization.
+
 **You can read more about MS Annika here:**
 
 | Description                | URL                                                                                    |
@@ -15,6 +26,7 @@ MS Annika is a crosslink search engine based on [MS Amanda](https://dx.doi.org/1
 
 | Version | Download URL |
 |:--------|:-------------|
+| Latest MS Annika 3.0 [version](https://raw.githubusercontent.com/hgb-bin-proteomics/MSAnnika/master/releases/latest/PD3.2/version.txt) for Proteome Discoverer 3.2 | [**download**](https://github.com/hgb-bin-proteomics/MSAnnika/raw/master/releases/latest/PD3.2/latest.zip) |
 | Latest MS Annika 3.0 [version](https://raw.githubusercontent.com/hgb-bin-proteomics/MSAnnika/master/releases/latest/PD3.1/version.txt) for Proteome Discoverer 3.1 | [**download**](https://github.com/hgb-bin-proteomics/MSAnnika/raw/master/releases/latest/PD3.1/latest.zip) |
 | Latest MS Annika 2.0 [version](https://raw.githubusercontent.com/hgb-bin-proteomics/MSAnnika/master/releases/latest/PD3.0/version.txt) for Proteome Discoverer 3.0 | [**download**](https://github.com/hgb-bin-proteomics/MSAnnika/raw/master/releases/latest/PD3.0/latest.zip) |
 | Latest MS Annika 2.0 [version](https://raw.githubusercontent.com/hgb-bin-proteomics/MSAnnika/master/releases/latest/PD2.5/version.txt) for Proteome Discoverer 2.5 | [**download**](https://github.com/hgb-bin-proteomics/MSAnnika/raw/master/releases/latest/PD2.5/latest.zip) |

releases/3.0.7/PD3.1/MS_Annika_3.0_PD3.1.zip

@@ -0,0 +1 @@
+MS Annika 3.0 version 3.0.7

releases/3.0.7/PD3.1/version.txt

@@ -0,0 +1 @@
+MS Annika 3.0 version 3.0.7

releases/3.0.7/PD3.2/MS_Annika_3.0_PD3.2.zip

@@ -1 +1 @@
-MS Annika 3.0 version 3.0.5
+MS Annika 3.0 version 3.0.7

releases/3.0.7/PD3.2/version.txt

@@ -0,0 +1 @@
+MS Annika 3.0 version 3.0.7