ArticleWellcome open research2023
Rotate: A command-line program to rotate circular DNA sequences to start at a given position or string.
Article in Wellcome open research, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
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- Diverse Onchocercidae from Malaysian cats and Indonesian macaques: Morphological and molecular analysis of individual microfilariae using mitochondrial genomes, 28S rRNA, and Wolbachia endosymbiont sequences.PLoS neglected tropical diseases · 2026Article
- Characterisation of the chloroplast genome of Macrotyloma species: comparative analysis and phylogenomic insights.Scientific reports · 2026Article
- Diversity and evolution of a phase-variable multi-locus antigen in Neisseria gonorrhoeae.PLoS pathogens · 2026Article
- Diversity and evolution of a phase-variable multi-locus antigen inbioRxiv : the preprint server for biology · 2026Article
- Comparative chloroplast genome analysis of fourFrontiers in plant science · 2026Article
- The complete chloroplast genome ofFrontiers in plant science · 2026Article
- Continuity of eastern Beringian megafauna phylogenetic diversity following deposition of the Late Pleistocene Dawson tephra.Arctic, antarctic, and alpine research · 2026Article
- Exploring the IS-capades ofMicrobial genomics · 2026Article
- Complete mitogenomes reveal high diversity and recent population dynamics in Antarctic krill.BMC genomics · 2025Article
- Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Sequences derived from circular DNA molecules (i.e. most bacterial, viral and plastid genomes) are expected to be linearised and rotated to a common start position for most downstream analyses including alignment. Despite this being a common and straightforward task, available software is either limited to a small number of input sequences, lacks the option to specify a custom anchor string, or requires a commercial license. Here, we present rotate, a simple, open source command line program written in C with no external dependencies, which can rotate a set of input sequences to a custom anchor string (allowing for a specified number of mismatches), or offset the input sequences to the desired position. The combination of both functionalities allows the rotation of all input sequences to any desired starting position, enabling downstream analysis. rotate is extremely fast and scales linearly with the number of input sequences, taking only seconds to rotate over a thousand mitochondrial sequences.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.