Ulana

Unicellular Long-read Assembly aNd Annotation

A bacterial genome assembly and annotation pipeline using Fast, HAC or SUP ONT basecalled data from MinION and Flongle flow cells. Updated with a GUI for ease of use.

ulana

1. vt. To plait, weave, knit, braid; plaiting, weaving. Also unala, nala, unana. Mea ulana ʻia, plaited or woven material, textile. Mea ulana lole, weaver (Isa. 38.12), loom. (PPN langa.)

Installation

Building the docker image from the dockerfile:

cd path/to/directory/ulana-gui/
docker build -t ulana-gui:latest .
docker run --name=ulana-gui -p 8080:3838 -dt ulana-gui:latest

Using the dockerhub image:

docker pull ethill/ulana-gui:latest
docker run --name=ulana-gui -p 8080:3838 -dt ulana-gui:latest

Once the container is running navigate to http://localhost:8080 to use the application!

Citation

You can find the Ulana paper here

If you use this pipeline please use this citation:

Prescott, R. D., Chan, Y. L., Tong, E. J., Bunn, F., Onouye, C. T., Handel, C., Lo, C.-C., Davenport, K., Johnson, S., Flynn, M., Saito, J. A., Lee, H., Wong, K., Lawson, B. N., Hiura, K., Sager, K., Sadones, M., Hill, E. C., Esibill, D., … Donachie, S. P. (2023a). Bridging Place-based astrobiology education with genomics, including descriptions of three novel bacterial species isolated from Mars analog sites of cultural relevance. Astrobiology, 23(12), 1348–1367. https://doi.org/10.1089/ast.2023.0072