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Institute
of Computing Technology,
Chinese
Academy of Sciences,
Beijing,
China
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pCluster is a software tool for
detecting protein modifications by tandem mass spectra clustering.
It contains
two algorithms, one of which clusters spectra using precursor information
and the other uses fragment information in LC-MS/MS. The precursor-based
algorithm named DeltAMT can detect abundant modifications in an extremely
fast speed. pCluster is currently used to detect abundant modifications. To detect low-abundance modifications, please try our another tool, pMatch.
Download:
pCluster was
written in C++ and can be downloaded for non-commercial use:
pCluster1.0.zip
UserGuide.pdf
The DeltAMT
algorithm was also implemented using MATLAB:
DeltAMT.zip
Usage: deltamt para_file
Notes:
1, run the above command in MS DOS window.
2, para_file is a parameter file (an example: example_para.txt)
3, MATLAB (or running environment) must be installed.
4, Bioworks must be installed to read Thermo Scientific’s RAW
file.
Citation:
Yan Fu, Liyun Xiu, Wei Jia, Ding Ye, Ruixiang Sun, Xiaohong Qian, Si-min He. DeltAMT: a statistical
algorithm for fast detection of protein modifications from LC-MS/MS data. Molecular & Cellular Proteomics. In press.
Contact: yfu@ict.ac.cn
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