Reverse Dependencies of pyrodigal

The following projects have a declared dependency on pyrodigal:

• bakta — Bakta: rapid & standardized annotation of bacterial genomes, MAGs & plasmids
• binette — Binette: accurate binning refinement tool to constructs high quality MAGs.
• codoff — Program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, phage, etc.) relative to the full genome.
• dnaapler — Reorients assembled microbial sequences
• FastAAI — A rapid estimator for amino acid identity between genomes.
• fastaai-preproc — Protein predictions and HMM searches
• FastAAI-release — A rapid estimator for amino acid identity between genomes.
• fetchMGs — FetchMGs extracts the 40 marker genes from genomes and metagenomes in an easy and accurate manner.
• genomeocean — A Python library for GenomeOcean inference and fine-tuning.
• hkgfinder — find housekeeping genes in prokaryotic (meta)genomic data
• mdmparis-defense-finder — Defense Finder: allow for a systematic search of all known anti-phage systems.
• metapyrodigal — Pyrodigal cli optimized for metagenomic data
• Pharokka — Fast phage annotation tool
• pyrodigal-gv — A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
• RecruitPlotEasy — A tool for visualizing short read mapping efforts
• run-dbcan-new — Update version for dbCAN
• StORF-Reporter — StORF-Reporter - A a tool that takes an annotated genome and returns missing CDS genes (Stop-to-Stop) from unannotated regions.
• tadrep — TaDRep: Targeted Detection and Reconstruction of Plasmids