Introduction Data Input Prediction Levels Run Prediction Output Example Browser Compatibility

Introduction

Help section page of PRGminer, here you will find a step by step guide to submit and display the result of an analysis, as well as the different options regarding prediction on PRGminer and what each parameter means. If you have any questions that are not covered in this page please refer to FAQ page or send an email to naveen.duhan@usu.edu. For this tutorial we will use the Demo data, so if you want to replicate the results obtained in this tutorial just click in the load Demo FASTA link.

This website is free and open to all users and there is no login requirement.

Data input

PRGminer supports FASTA format. You can either upload a file or paste your sequences in the text area below or provide NCBI/UniProt accession in the text box below. You can upload amino acid sequences after selecting appropriate query sequence type below.

Prediction Phases

PRGminer execute two Phase plant resistance gene prediction where Phase1 classify a protein into Rgene vs non rgene and Phase2 classify Rgenes into 8 classes: CNL, KIN, LYK, LECRK, RLP, RLK, TIR, TNL.

Run Prediction

Run Prediction section contains an input box in which you can provide an email to receive a link to your results when they are done. You can reset the form. Run prediction button will execute the prediction on PRGminer server.

Output Example

The result table will change depending of the prediction level used. On the top, you will have download results button, which download the comprehensive table result in tab-delimited format.

Browser Compatibility

PRGminer have been tested in the following setups.

OS	Version	Chrome	Firefox	Safari	Edge
Linux	Ubuntu 22.04	108.0.5359.71	112.0.2	n/a	113.0.1774.35
MacOS	Ventura 13.3.1 (a)	108.0.5359.71	112.0.2	16.4	113.0.1774.35
Windows	10	108.0.5359.71	112.0.2	not tested	113.0.1774.35