Thread by @aammar_tufail

Prokaryotic genome annotation is an important process in understanding the function and biology of bacteria and other prokaryotes.
Here are the top 10 pipelines for prokaryotic genome annotation🧵: #bioinformatics #DataScience #Genomics #Linux

#1: RAST (Rapid Annotation using Subsystems Technology) - a web-based tool for annotating bacterial and archaeal genomes rast.nmpdr.org

#2: Prokka - a fast, reliable, and easy-to-use annotation tool for bacterial and archaeal genomes github.com/tseemann/prokka

#3: IslandPath-DIMOB - a pipeline for identifying genomic islands and mobile genetic elements ncbi.nlm.nih.gov/pubmed/22105793

#3: IslandPath-DIMOB - a pipeline for identifying genomic islands and mobile genetic elements ncbi.nlm.nih.gov/pubmed/22105793

#4: GeneMark - a genome annotation tool that uses both ab initio and homology-based prediction methods ncbi.nlm.nih.gov/pmc/articles/P…

#5: Glimmer - a tool for identifying genes in bacterial and archaeal genomes using a combination of interpolated Markov models and codon usage bias ncbi.nlm.nih.gov/pmc/articles/P…

#6: Prodigal - a fast and accurate gene prediction tool for prokaryotic genomes github.com/hyattpd/Prodig…

#7: BRAKER - a pipeline for de novo gene annotation using RNA-Seq data github.com/Gaius-Augustus…

#8: AntiSMASH - a tool for identifying and annotating secondary metabolism gene clusters in prokaryotes antismash.secondarymetabolites.org

#9: CRISPRFinder - a tool for identifying CRISPR arrays and associated Cas genes in prokaryotic genomes crispr.u-psud.fr

#10: BAGEL - a pipeline for predicting and annotating gene clusters involved in biosynthesis of secondary metabolites ncbi.nlm.nih.gov/pmc/articles/P…