A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data
The zip (FragPipe-14.0.zip) doesn't contain Java, you will need Java 1.8+ to run.
The other zip with -jre-
in its name (FragPipe-jre-14.0.zip) contains a Java runtime for Windows only.
/bin
subdirectory you will find a shell script for Linux
, bat file for Windows
and an exe file for Windows
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.
The zip (FragPipe-13.0.zip) doesn't contain Java, you will need Java 1.8+ to run.
The other zip with -jre-
in its name (FragPipe-jre-13.0.zip) contains a Java runtime for Windows only.
/bin
subdirectory you will find a shell script for Linux
, bat file for Windows
and an exe file for Windows
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.
v13.0:
v12.2:
FragPipe.bat
file, which can be started by either clicking or running it from the command line.jar
file with java -jar FragPipe-12.2.jar
or start javaw -jar FragPipe-12.2.jar
if you prefer to not have the console window open.
If Java is configured to auto-run .jar
files, double clicking might also work.java -jar FragPipe-12.2.jar
.v12.2:
v12.1:
FragPipe.bat
file, which can be started by either clicking or running it from the command line.jar
file with java -jar FragPipe-12.1.jar
or start javaw -jar FragPipe-12.1.jar
if you prefer to not have the console window open.
If Java is configured to auto-run .jar
files, double clicking might also work.java -jar FragPipe-12.1.jar
.v12.1:
v12.0:
v11.0:
FragPipe v12.0
FragPipe.bat
file, which can be started by either clicking or running it from the command line.jar
file with java -jar FragPipe-12.0.jar
or start javaw -jar FragPipe-12.0.jar
if you prefer to not have the console window open.
If Java is configured to auto-run .jar
files, double clicking might also work.java -jar FragPipe-12.0.jar
.v12.0:
v11.0:
v10.0:
FragPipe.bat
file, which can be started by either clicking or running it from the command line.jar
file with java -jar FragPipe-11.0.jar
or start javaw -jar FragPipe-11.0.jar
if you prefer to not have the console window open.
If Java is configured to auto-run .jar
files, double clicking might also work.java -jar FragPipe-11.0.jar
.v11.0:
v10.0:
FragPipe.bat
file, which can be started by either clicking or running it from the command line.jar
file with java -jar FragPipe-10.1.jar
or start javaw -jar FragPipe-10.1.jar
if you prefer to not have the console window open.
If Java is configured to auto-run .jar
files, double clicking might also work.Either download FragPipe-10.1.zip, which contains FragPipe shell script to start the program or download the FragPipe-10.1.jar and run with java -jar FragPipe-10.1.jar
.
v10.0:
v9.4:
FragPipe.bat
file, which can be started by either clicking or running it from the command line.jar
file with java -jar FragPipe-9.4.jar
or start javaw -jar FragPipe-9.4.jar
if you prefer to not have the console window open.
If Java is configured to auto-run .jar
files, double clicking might also work.Either download FragPipe-9.4.zip, which contains FragPipe shell script to start the program or download the FragPipe-9.4.jar and run with java -jar FragPipe-9.4.jar
.
v9.4:
v9.3:
v9.1:
v9.0:
FragPipe.bat
file, which can be started by either clicking or running it from the command line.jar
file with java -jar FragPipe-9.1.jar
or start javaw -jar FragPipe-9.1.jar
if you prefer to not have the console window open.
If Java is configured to auto-run .jar
files, double clicking might also work.Either download FragPipe-9.1.zip, which contains FragPipe shell script to start the program or download the FragPipe-9.1.jar and run with java -jar FragPipe-9.1.jar
.
v9.1:
v9.0:
jar
file with java -jar FragPipe-9.0.jar
or start javaw -jar FragPipe-9.0.jar
if you prefer to not have the console window open.
If Java is configured to auto-run .jar
files, double clicking might also work.Download the .jar file and run with java -jar FragPipe-9.0.jar
.
v9.0:
v8.8: