sarahhp/snlace repository overview

This is a docker image for the snakemake implementation of the necklace pipeline to create custom transcriptomes from RNAseq data. This does not include the scripts involved in the actual pipeline but works as OS-independent environment in which to run them. For the scripts see: https://github.com/sarahhp/snlace⁠.

To run:

1. Mount data and scripts to the container. I reccommend mounting input (genome references and raw fasta files) and output directories separately to the docker to ensure files are saved with a minimal of i/o. e.g. docker run -it --volume '/Data':'/home/data_input' --volume '/home/output':'/home/output_data' sarahhp/snlace:firsttry bash