Normalizes the uploaded data using twelve different well known normalization methods and compares the resulting data based on quantitative and qualitative parameters. Normalyzer is completely automated online tool for data normalization. There are no parameters to configure and no scripts to install.
Recalibrates the mass-to-charge ratio error of most observed parent ions to the sub part per million level in routine experiments. First, many new parameters were introduced and screened as features online to reduce systematic error and to adapt to various data sets. Second, a support vector regression model was trained to characterize the complex nonlinear maps from features to mass-to-charge ratio measurement errors. Third, a specific mass-to-charge ratio error tolerance for each parent ion was estimated by considering the impact of signal intensity. FTDR 2.0 is a user-friendly tool that supports most commonly used data standards and formats. A C++ library and the source code are provided to support the redevelopment and integration into other mass spectrometry data processing tools.
Performs liquid chromatography tandem mass spectrometry (LC-MS/MS) data information. Analyst is a standalone application intending to furnish a wide range of functionalities including: (i) features for tuning and calibration; (ii) various devices methods; (iii) methods for both qualitative and quantitative analysis including calculators, method to find peaks and utilities for generating metric plots and specific report tables.
Assists users to analyze proteomic data. PaDuA includes several modules allowing different actions: (1) reading and writing both MaxQuant and Perseus format files; (2) filtering data by quality and features; (3) incorporating experimental design, labels to index, expand-side-table; (4) performing normalisation methods; (5) adding annotation metadata for quantified proteins; or (6) performing simple analyses such as column correlations.
Serves for conventional feature extraction-based workflows to reduce misalignment and improve inter-sample normalization. GIRO consists of a signal processing based method for liquid chromatography-mass spectrometry (LCMS) retention time adjustment. This tool provides two functions: retention time alignment and abundance normalization. It processes by taking every LCMS samples as an image. Moreover, it aligns the retention time of all LCMS images into the same coordinate system by applying groupwise image registration.