Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)

MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data

Organellar genome assembly

The MitoGeneExtractor can be used to extract protein coding mitochondrial genes, such as COI and others from short and long read sequencing libraries.

An R package for mitogenome assembly and annotation from genome skimming data that uses Nexflow and includes (Shiny) web app for project management and final curation of results

MitoSIS (Mitochondrial Species Identification System) is a wrapper for mitochondrial genome assembly and identification of sample contamination or mislabeling.

Automatically download, compare, and assemble genomes from NCBI

A snakemake pipeline wrapping MitoZ and getOrganelle for de novo mitogenome assembly using short reads and subsequent QC.

HumaninFinder is an easy-to-use bioinformatics tool for the discovery and classification of Humanin-like peptides (sORFs).

Automated mitochondrial genome assembly using SRA public data

The Termite Mitogenome Database. Centralization of termite mitogenomes and assignation of unique identification code.

Python workflow for mitochondrial genome assembly, read enrichment, circularity assessment, and curation from Illumina and PacBio data.

Extraction of gene segments from genomes according to your gene boundary and genome dataset preparation

Repository for mitogenome assembly and annotation in termites.

Comparing and evaluating mitogenome assemblers

Pipeline for data mining on human mitochondrial genome data