This repository contains the analysis workflow for the manuscript entitled "The genome sequence of the Australian filarial nematode, Cercopithifilaria johnstoni"
Abstract: "We present a genome assembly and annotation of an individual female Cercopithifilaria johnstoni, a filarial parasitic nematode that is transmitted by hard ticks (Ixodidae) to infect a broad range of native Australian murid and marsupial hosts. The genome sequence is 76.9 Mbp in length, and although in draft form (N50 = 99 kbp, N50[n] = 232), is largely complete based on universally conserved orthologs (BUSCOs; genome = 94.9%, protein = 96.5%) and relative to other related filarial species. These data represent the first genomic resources for the genus Cercopithifilaria, a group of parasites that have a broad host range, and form the basis for comparative analysis with the human-infective parasite, Onchocerca volvulus, both of which are responsible for similar eye and skin pathologies in their respective hosts."
Authors: Kirsty McCann, Warwick Grant, Stephen R. Doyle
The code for the analysis is available here: workbook
The code for the post peer-review analysis is available here: workbook
Any reuse of data or code is encouraged with due acknowledgement, either via citation of the published manuscript (when available) and/or GitHub repository. Comments, suggestions, and discussion are welcome.
Note: while much effort is made to make all data and code available, some of the code is very specific to the Sanger HPC environment and will need to be modified to work elsewhere. If you are interested in using any of it for your own work, but are stuck, please do get in touch.
Copyright (c) 2021, Stephen R Doyle
All rights reserved.
This source code is licensed under the BSD-style license found in the LICENSE file in the root directory of this source tree.
