This repo is created for a custom analysis which involves sequencing target sequence which are very short (11-23bp long) being amplified by a set of primers from the system of interest (bacteria culture) and finding the expression level of the sequence of interest. HOW TO USE
- Install miniconda/anaconda
- Create conda environment with yaml file
- conda env create --file environment.yml
- Change directory to work directory
- cd /mnt/volume1/
- Ensure data is found inside fastq folder ie /mnt/volume1/fastq
- Run nextflow script
- nextflow run custom_trimFASTP_mapPYTHON.nf -resume --outdir results -with-report log.html