maxquant
Link to section 'Introduction' of 'maxquant' Introduction
Maxquant is a quantitative proteomics software package designed for analyzing large mass-spectrometric data sets. It is specifically aimed at high-resolution MS data.
For more information, please check home page: https://www.maxquant.org.
Link to section 'Versions' of 'maxquant' Versions
- 2.1.0.0
- 2.1.3.0
- 2.1.4.0
- 2.3.1.0
Link to section 'Commands' of 'maxquant' Commands
- MaxQuantGui.exe
- MaxQuantCmd.exe
Link to section 'Module' of 'maxquant' Module
You can load the modules by:
module load biocontainers
module load maxquant
Link to section 'GUI' of 'maxquant' GUI
To run Maxquant with GUI, it is recommended to run within ThinLinc:
(base) UserID@bell-fe00:~ $ sinteractive -N1 -n12 -t4:00:00 -A myallocation
salloc: Granted job allocation 12345869
salloc: Waiting for resource configuration
salloc: Nodes bell-a008 are ready for job
(base) UserID@bell-a008:~ $ module load biocontainers maxquant
(base) UserID@bell-a008:~ $ MaxQuantGui.exe
Link to section 'CMD job' of 'maxquant' CMD job
Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.
To run Maxquant without GUI on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=maxquant
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers maxquant
MaxQuantCmd.exe mqpar.xml