SciaraTools1: sciara-project-tools

Tools I made while working with Sciara (Bradysia) coprophila (black fungus gnat) datasets and assemblies.

NOTE: Intended Stagnation

This directory will no longer be updated, although may remain useful. I am slowly building sciaraTools2 with much of what is here, but updated for Python3: https://github.com/JohnUrban/sciaratools2

If you find these tools useful for your own work, please cite the fungus fly genome preprint:

Urban JM, Foulk MS, Bliss JE, Coleman CM, Lu N, Mazloom R, Brown SJ, Spradling AC, Gerbi SA. 2020.

Single-molecule sequencing of long DNA molecules allows high contiguity de novo genome assembly for the fungus fly, Sciara coprophila.

bioRxiv 2020.02.24.963009.

https://www.biorxiv.org/content/10.1101/2020.02.24.963009v1

This paper contains the first descriptions of Fast5Tools, Battery, and Lave.