inst/sample_size_estimator/www/Welcome.md

In Vitek-Lab/MSstatsSampleSize: Simulation tool for optimal design of high-dimensional MS-based proteomics experiment

Welcome to MSstats - Sample Size Estimator

Introduction

MSstats - Sample Size Estimator is a web-based graphical user interface that provides a user-friendly way to visualize and report the results from MSstatsSampleSize package

MSstatsSampleSize is an open-source R package, available in Bioconductor. It allows researchers to design optimal MS-based proteomics experiments in terms of statistical power and the use of resources for biomarker discovery. In particular, MSstatsSampleSize uses protein-level data from a prior MS-based proteome investigation as a basis to plan future experiments with similar methodologies. The software therefore significantly contributes to the design of biological and clinical studies that involve replicates.

MSstats - Sample Size Estimator was created using R-Shiny , a Web Application Framework for R. It enables researchers without experience with R/programming to utilize the functions from MSstatsSampleSize.

Notes:

• As a preliminary experiment, more biological replicates are preferred but a minimal of three biological replicates per condition are required in the input dataset.
• MSstatsSampleSize uses simulation experiments to mimic the future experiments with different samplesizes. Thus, increasing the simulated sample size and the number of simulations are expected to increase the running time.

Get Started

Begin by importing your dataset from the Import Data submenu in the sidebar or by simply click the Start button down below. Accepted data format includes. Protein abundance/summarised spectral counts Corresponding sample annotation file in a delimiter-separated format.

Example datasets from MSstatsBioData are also available from within the app.

Vitek-Lab/MSstatsSampleSize documentation built on Aug. 28, 2020, 10:39 a.m.