TDCD_FDR_Calculator

The TDCD_FDR_CALCULATOR provides a context-dependent FDR calculation that can be applied post-search to enhance the quality of results in top-down proteomics from any search engine.

Dependencies

This tool is provided as a .NET Core project and, as such, supports Windows, macOS, and most Linux distributions. You must install the .NET SDK that works with your system:

Windows

macOS

Linux

Example Usage

After cloning the github repository locally, you should run the following commands from the TDCD_FDR_CALCULATOR project directory (contains the .csproj file).

dotnet build
dotnet .\bin\Debug\netcoreapp2.0\TDCD_FDR_Calculator.dll

This will display usage information for the tool. To run the example files, use the following command:

dotnet .\bin\Debug\netcoreapp2.0\TDCD_FDR_Calculator.dll ..\..\examples\target.csv ..\..\examples\decoy.csv ..\..\examples\output.csv

File Format

The input files must be CSV files where the first column is a generic text tag and the second column is a score (where larger is better, sorted ascending). The output CSV will be the same as the forward input file, but with two additional columns: non-parametric q-value and Enhanced q-value.