umgap uniq
Joins consecutive FASTA records with the same header.
The umgap uniq command can be used to join together the predictions of 2 paired ends before
aggregation.
Usage
The input is given in a FASTA format on standard input. The content of all consecutive records with the same FASTA header is joined under a single header, separated by newlines (or another separated set with -s).
A delimiter can be passed with the -d option to drop this delimiter and everything after it from the FASTA header before comparing it.
$ cat input.fa >header1/1 147206 240495 >header1/2 1883 1 1883 1883 $ umgap uniq -d / < input.fa >header1 147206 240495 1883 1 1883 1883
- -h / --help
- Prints help information
- -V / --version
- Prints version information
- -w / --wrap
- Wrap the output sequences
- -s / --separator s
- Separator between output items [default: newline]
- -d / --delimiter d
- Strip FASTA headers after this string