Tyler A. Elliott

Biological implications of a detailed repeat annotation in Octopus vulgaris

The paper provides a refined repeat annotation of Octopus vulgaris genome, revealing higher repeat content and multiple TE expansion events compared to previous studies.

A Collaborative DNA Barcode Library for the Diptera of Churchill, Canada: Exploration of Biodiversity and Biogeography

The paper presents a DNA barcode library for Diptera in Churchill, Canada, revealing biodiversity patterns and molecular evolution insights.

Reconstruction of Small Subunit Ribosomal RNA from High-Throughput Sequencing Data: A Comparative Study of Metagenomics and Total RNA Sequencing

This study compares metagenomics and total RNA-Seq for reconstructing full-length SSU rRNA from HTS data, finding that total RNA-Seq provides more complete reconstructions.

DROP: Molecular voucher database for identification of Drosophila parasitoids

The paper introduces DROP, a curated molecular reference database for Drosophila parasitoids, to improve molecular identification and taxonomic accuracy.

debar, a sequence-by-sequence denoiser for COI-5P DNA barcode data

debar is an R package that denoises COI-5P DNA barcode data using a profile hidden Markov model, reducing indel errors by 75-94% with a low false correction rate.

coil: an R package for cytochrome C oxidase I (COI) DNA barcode data cleaning, translation, and error evaluation.

The paper introduces the coil R package for cleaning, translating, and evaluating errors in COI-5P DNA barcode data, showing high accuracy in identifying technical errors but limitations in detecting biological contaminants.

Benchmarking Transposable Element Annotation Methods for Creation of a Streamlined, Comprehensive Pipeline

The paper benchmarks TE annotation methods and develops a pipeline called EDTA to create a comprehensive, condensed TE library for both intact and fragmented elements in rice genomes.