conesalab/mircure repository overview

⁠Docker for MirCure

MirCure is a computational application to assist on filtering and curating microRNA annotations obtained from databases or de novo miRNA annotation tools.

This Docker will run MirCure on your computer. It will return a URL (tipically http://[::]:3838/ ) to access its graphic interface on any web browser.

⁠Run MirCure Docker

We recommend to run MirCure indicating the path to the directories that contain the genome and bam files.

Example:

docker run --rm -p 3838:3838 \
 -v LOCAL_Genome_DIR:/srv/shiny-server/data/genomes \
 -v LOCAL_BAMFILE_DIR:/srv/shiny-server/data/bamfiles \
 -v LOCAL_DIR_TO_SAVE_MIRCUREREPORTS:/srv/shiny-server/reports\
     conesalab/mircure

Where:

- **LOCAL_Genome_DIR** is the path to directory where the **genome fasta file** is located.
- **LOCAL_BAMFILE_DIR** is the path to directory where the **bam file** is located.
- **LOCAL_DIR_TO_SAVE_MIRCUREREPORTS** path to directory where **MirCure** pdf reports will be saved.

Open the URL that the terminal will return (typically http://[::]:3838⁠) in a web browser.

⁠MirCure Software

For more details visit the official GitHub repository: https://github.com/ConesaLab/MirCure⁠

⁠Citation

Ylla, G., Liu, T. and Conesa, A. (2020). MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants⁠, Bioinformatics. Oxford University Press (OUP), 36(Supplement_2), pp. i618–i624. doi: 10.1093/bioinformatics/btaa889.