miRQuest - How to use Tutorial
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This document provides instructions for using the miRQuest tool to either benchmark miRNA prediction tools or identify miRNAs in a dataset. It describes selecting prediction tools, setting parameters, uploading positive and negative FASTA files for benchmarking, or uploading a single file for identification. The tutorial explains how benchmarking will compare tools and email results, while identification only requires uploading a file to predict miRNAs.
miRQuest - How to use Tutorial
- 1. How to use Tutorial Benchmark & Predic/on tools for miRNAs iden/fica/on www.integra/vebioinforma/cs.me/mirquest
- 2. Ø Trough this tutorial you will learn how to: Ø Perform benchmark between the currently available miRNA predic/on tools in order to choose the best one to work with your organims; Ø Iden/fy miRNAs using your own datasets.
- 3. Ø The first step is to go to the TOOL tab, marked with the yellow arrow.
- 4. Ø Once there, you should see the currently available tools for the microRNAs predic/on. Ø It is possible to select one or more tools.
- 5. Ø AJer you choose one or more of them, you will be able to set (if needed) different parameters. Default values are shown.
- 6. Ø AJer define the soJware parameters, you need to choose between the two main func/onali/es of miRQuest: Benchmark or Iden,fica,on
- 7. Ø If you choose to perform a Benchmark analysis, It is necessary provide e-‐mail to receive the results and defined the two dataset file (posi/ve and nega/ve) in FASTA format.
- 8. Ø You can see below the examples about the two files. Note that there are some exemplary files available to download: Ø Posi%ve file: Mul/ FASTA file containing proved miRNA sequences. It must have FASTA, FA or TXT extension and it cannot be larger than 5 mb. For example: Ø Nega%ve file: Mul/ FASTA file containing non miRNA sequences (i.e. mRNA sequences). It must have FASTA, FA or TXT extension and it cannot be larger than 5 mb. For example:
- 9. Ø Finally, clicking Process will trigger the benchmark calcula/on. You should receive an email with the graphs & sta/s/cs among the different selected soJwares.
- 10. Ø On the other hand, if you choose to perform a Iden,fica,on analysis, you only need to point out your e-‐mail and the mul/ FASTA file with the sequences to be analyzed.
- 11. How to Tutorial Benchmark & Predic/on tools for miRNAs predic/ons www.integra/vebioinforma/cs.me/mirquest