fastq_timesplit

Shell script for splitting fastq file (oxford nanopore sequencing) based on time (in minutes).

Usage

./fastq_timesplit.sh path/to/dir/sub-directory_with_fastq 30
$1 path to directory containing sub-directories with fasat files
$2 Integer representing time interval (eg. 30 means 30 minutes)

Uses python script from @wdecoster/nanopore_timefilt.py (https://gist.github.com/wdecoster/1ab9adac7c8095498ff91ee22468eaac#file-nanopore_timefilt-py) to split fastq files

Dependencies

• biopython
• python module (https://pypi.org/project/python-dateutil/)