Barrnap goes HAM on microbial RNA

So, it has been 8 years since the last barrnap release. In that time, it's been a simple ribosomal RNA feature predictor for genomes, primarily bacterial genomes through it's use in prokka.

This new version will keep doing that, as a drop in replacement. It's a bit slower (but more accurate), and some of the feature names have changed, but you'll still get a GFF file with rRNA features.

However, if you use the --all option it will now do a lot more:

• rRNA (ribosomal RNA)
• tRNA (transfer RNA)
• tmRNA (transfer-messeenger RNA)
• ncRNA (non-coding RNA)
• mRNA (messenger RNA)
  • RBS (ribosomal binding site)
  • CDS (protein coding sequence)
  • sig_pep (signal peptide)
  • terminator (Rho-independent terminator)

I am most excited about full ncRNA support, because these features are often ignored in GWAS and RNA-Seq experiments.

See you again in the year 2034 🤣

Full Changelog: 0.9...v1.10.5

Show me the locii

• Added --outseq to get a FASTA of the hits (needs bedtools)
• Supports reading stdin for piping
• Now in Conda and Brew
• Improved documentation
• TRAVIS testing
• Fix return codes for --help etc
• Fixed missing 18S model in euk
• Clarify mito is Metazoan only
• Prefer nhmmer at front of $PATH first

Two years later

• updated databases
• allow nhmmer in PATH to be chosen first

Migrate to the new job

0.7

Bump to version 0.7

Short but significant

0.6

Fix typo #5

Half way there.

Was missing 18S model from the EUK kingdom database.

Documentation updated

0.4.2

Bump to 0.4.2

Barrnap now also supports Eukarya / Mitochondria

0.4.1

Added usage example with short options

Archaea support added

0.3

Remove old 0.2 makefile logic

0.2

Fixed strand bug and added version to GFF column 2.