Determines the location of ribosomal RNA genes in genomes. Barrnap is a bacterial ribosomal RNA predictor for bacteria (5S,23S,16S), archaea (5S,5.8S,23S,16S), metazoan mitochondria (12S,16S) and eukaryotes (5S,5.8S,28S,18S). The software supports multithreading and roughly linear speed-ups can be expected with more CPUs.
Allows data analysis of ribosomal RNA gene (rDNA) amplicon reads from high-throughput sequencing as next-generation sequencing (NGS) approaches. SILVAngs is a web interface which uses as a reference the SILVA rDNA databases, taxonomies, and alignments. The workflow of the pipeline is parceled into Alignment, Quality management, De-replication (identification of identical sequences), Clustering at a user-defined threshold (OTU definition) and Classification of the OTUs/reads.
A software program designed for the identification of ribosomal RNA (rRNA) genes from metagenomic fragments based on hidden Markov models (HMMs). meta_rna provides rRNA gene predictions with high sensitivity and specificity on artificially fragmented genomic DNAs.
Facilitates the rapid detection of 16S rDNA fragments from amongst millions of sequences in metagenomic data sets with high detection sensitivity. Performance evaluation with data sets/database variants simulating typical metagenomic scenarios indicates the significantly high detection sensitivity of i-rDNA. Moreover, i-rDNA can process a million sequences in less than an hour on a simple desktop with modest hardware specifications.