FragPipe v18.0

Downloading

• The zip (FragPipe-18.0.zip) doesn't contain Java, you will need Java 9+ to run.

• The other zip with -jre- in its name (FragPipe-jre-18.0.zip) contains a Java runtime for Windows only.

Running

• Unzip the file
• In /bin subdirectory you will find a shell script for Linux, bat file for Windows and an exe file for Windows

Note to Windows users

Windows 10 might show a UAC prompt, saying that this is not a trusted program, it's up to you whether to run it or not.

Changelog:

v18.0:

• Require Java 9+
• Require MSFragger 3.5+
• Require Philosopher 4.2.2+
• Require IonQuant 1.7.30+
• Add new FragPipe-PDV visualization module
• Add the IonQuant configuration panel
• Add more workflows
• Upgrade DIA-NN to 1.8.1
• Upgrade PTM-Shepherd to 2.0.0
• Upgrade TMT-Integrator to 3.3.3
• Upgrade DIA-Umpire to 2.2.8
• Upgrade MSBooster to 1.1.4
• Upgrade Crystal-C to 1.4.4
• Various minor bug fixes and improvements