Man page - pullseq(1)

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Package:  pullseq
apt-get install pullseq

Manuals in package:
• seqdiff(1)
• pullseq(1)
Documentations in package:
• pullseq

Manual

PULLSEQ

NAME
DESCRIPTION
Usage:
AUTHOR

---

NAME

pullseq - <short_description>

DESCRIPTION

pullseq - a bioinformatics tool for manipulating fasta and fastq files

Version: 1.0.2 Name lookup method: UTHASH (Written by bct - copyright 2012-2015)

Usage:

pullseq -i <input fasta/fastq file> -n <header names to select>

pullseq -i <input fasta/fastq file> -m <minimum sequence length>

pullseq -i <input fasta/fastq file> -g <regex name to match>

pullseq -i <input fasta/fastq file> -m <minimum sequence length> -a <max sequence length>

pullseq -i <input fasta/fastq file> -t

cat <names to select from STDIN> | pullseq -i <input fasta/fastq file> -N

Options:

-i , --input ,

Input fasta/fastq file (required)

-n , --names ,

File of header id names to search for

-N , --names_stdin , Use STDIN for header id names

-g , --regex ,

Regular expression to match (PERL compatible; always case-insensitive)

-m , --min ,

Minimum sequence length

-a , --max ,

Maximum sequence length

-l , --length ,

Sequence characters per line (default 50)

-c , --convert ,

Convert input to fastq/fasta (e.g. if input is fastq, output will be fasta)

-q , --quality ,

ASCII code to use for fasta->fastq quality conversions

-e , --excluded ,

Exclude the header id names in the list ( -n )

-t , --count ,

Just count the possible output, but don’t write it

-h , --help ,

Display this help and exit

-v , --verbose ,

Print extra details during the run

--version ,

Output version information and exit

AUTHOR

This manpage was written by Nilesh Patra for the Debian distribution and
can be used for any other usage of the program.

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