| NANOLYSE(1) | User Commands | NANOLYSE(1) |
NAME¶
NanoLyse - remove lambda phage reads from a fastq file
SYNOPSIS¶
NanoLyse [-h] [-v] [-r REFERENCE] [--logfile LOGFILE]
DESCRIPTION¶
Remove reads mapping to the lambda genome. Reads fastq from stdin and writes to stdout.
OPTIONS¶
optional arguments:¶
- -r, --reference REFERENCE
- Specify a reference fasta file against which to filter.
- --logfile LOGFILE
- Specify the path and filename for the log file.
General options:¶
- -h, --help
- show the help and exit
- -v, --version
- Print version and exit.
EXAMPLES:¶
- gunzip -c reads.fastq.gz | NanoLyse | gzip > reads_without_lambda.fastq.gz gunzip -c reads.fastq.gz | NanoLyse | NanoFilt -q 12 | gzip > filtered_reads_without_lambda.fastq.gz gunzip -c reads.fastq.gz | NanoLyse --reference mygenome.fa.gz | gzip > reads_without_mygenome.fastq.gz
AUTHOR¶
This manpage was written by Andreas Tille for the Debian
distribution and
can be used for any other usage of the program.
| June 2020 | NanoLyse 1.1.1 |