PRIDE tools

PRIDE Converter 2

PRIDE Converter 2 is a Java open source tool that can be used to convert a variety of popular proteomics data formats (search engine output files, such as Mascot dat, X!Tandem xml), into well-annotated PRIDE XML files (Figure 6). It is freely available from the PRIDE Converter 2 download page

Figure 6 The PRIDE Converter 2 tool.

 PRIDE Converter 2 is available to download from the project website.

PRIDE Inspector

PRIDE Inspector is an integrated desktop application for visualising and assessing the quality of a dataset (it supports the following data formats: mzML, PRIDE XML and mzIdentML). It is freely available from this PRIDE Inspector zipped folder. 

Figure 7 PRIDE Inspector showing a result file from dataset PXD000447.

PRIDE Inspector is available to download from the PRIDE Inspector project's website (Figure 7).

ProteomeXchange Submission Tool

The ProteomeXchange Submission Tool is a Java open-source tool that can be used to submit data to PRIDE (as part of the ProteomeXchange consortium). It annotates and transfers the files to the EBI. It is freely available from the ProteomeXchange submission page.

Figure 8 The ProteomeXchange Submission Tool

The ProteomeXchange Submission Tool is available to download from the Proteome Central website (Figure 8) .

PICR

The Protein Identifier Cross-Reference (PICR) service is a web application that provides web and programmatic (SOAP and REST) access to a mapping algorithm based on 100% sequence identity to proteins from over 98 distinct source databases (Figure 9). 

Figure 9 Screenshot from the PICR web application

PICR is available from the project website.