Biomedical Data Analysis Platform

Barrnap

Annotate all the bacterial RNA in genome.

Workflow

Input assembly FASTA
Upload assembled scaffold or scaftig sequences in FASTA format.
Run bacterial rRNA prediction
Use Barrnap with the bacterial rRNA database to detect rRNA gene regions.
Extract predicted rRNA sequences
Export predicted rRNA annotations and corresponding FASTA sequences.
Summarize rRNA results
Report total rRNA count, 5S rRNA, 16S rRNA, 23S rRNA, other rRNA, and total predicted rRNA length.

Data

The Barrnap sample dataset uses the assembled metagenomic FASTA file from sample ERR260162, such as ERR260162.scaffold_500bp.fa or ERR260162.scaftig.fa. This dataset demonstrates bacterial rRNA prediction from assembled metagenomic sequences and generation of rRNA annotation and FASTA output files.

Result

v0.2: The pipeline is stored in Code Repository: CRS1240818204583145472. The computational docker enrionment is stored in Software Repository: SRS1240818847939047424.

Reproducibility

The pipeline utilizes code CRS1240818204583145472 and Docker image SRS1240818847939047424, both of which are stored in the BMAP repositories.

Usage

1. Select the application 'Barrnap'
2. Click on the 'Analysis' button
3. Click on the 'Metagenomics pipeline'
4. Fill in the request parameters

5. Upload the compressed data in gz or rar format.