Choi Meena, Chang Ching-Yun, Clough Timothy, Broudy Daniel, Killeen Trevor, MacLean Brendan, Vitek Olga
Department of Statistics, Purdue University, West Lafayette, IN, Department of Genome Sciences, University of Washington, Seattle, WA 98195 and Department of Computer Science, Purdue University, West Lafayette, IN 47907, USA.
Department of Statistics, Purdue University, West Lafayette, IN, Department of Genome Sciences, University of Washington, Seattle, WA 98195 and Department of Computer Science, Purdue University, West Lafayette, IN 47907, USA Department of Statistics, Purdue University, West Lafayette, IN, Department of Genome Sciences, University of Washington, Seattle, WA 98195 and Department of Computer Science, Purdue University, West Lafayette, IN 47907, USA.
Bioinformatics. 2014 Sep 1;30(17):2524-6. doi: 10.1093/bioinformatics/btu305. Epub 2014 May 2.
MSstats is an R package for statistical relative quantification of proteins and peptides in mass spectrometry-based proteomics. Version 2.0 of MSstats supports label-free and label-based experimental workflows and data-dependent, targeted and data-independent spectral acquisition. It takes as input identified and quantified spectral peaks, and outputs a list of differentially abundant peptides or proteins, or summaries of peptide or protein relative abundance. MSstats relies on a flexible family of linear mixed models.
The code, the documentation and example datasets are available open-source at www.msstats.org under the Artistic-2.0 license. The package can be downloaded from www.msstats.org or from Bioconductor www.bioconductor.org and used in an R command line workflow. The package can also be accessed as an external tool in Skyline (Broudy et al., 2014) and used via graphical user interface.
MSstats是一个用于基于质谱的蛋白质组学中蛋白质和肽段统计相对定量的R包。MSstats 2.0版本支持无标记和基于标记的实验工作流程以及数据依赖、靶向和数据独立的光谱采集。它将已鉴定和定量的光谱峰作为输入，并输出差异丰富的肽段或蛋白质列表，或肽段或蛋白质相对丰度的汇总。MSstats依赖于一个灵活的线性混合模型家族。
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