Welcome to SMAP (A Pipeline for Sample Matching in Proteogenomics)

SMAP is a pipeline designed for verifying and correcting sample identity for a large mass spectrometry (MS)-based proteomics project. SMAP takes a variant peptide data that can be generated using the proteogenomics approach. The program then infers allelic information for each sample based on its expression level of the variant peptides. The program finally aligns the MS-based proteomic samples with genomic information (i.e., genotypic data) by using two discriminant scores.

Download

The cloud-based SMAP is built with the R shiny. You can visit at: https://smap.shinyapps.io/smap/

You can download stand-alone version at GitHub: https://github.com/UND-Wanglab/SMAP

Software requirement

The program a cross-platform application that can be run on Windows, Linux, and macOS. SMAP has both standalone and Rshiny versions. The standalone version supports all 64-bit operating systems. The program is written by a combination of Perl and R. The minimum required Perl version should be Perl 5.6 or R 3.6.0.

License

This program is free software. You can redistribute and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation. This program is distributed in the hope that it will be useful, but without any warranty. See the GNU General Public License for more details.

Contact

If you have any questions, please feel free to contact Xusheng Wang.