FreeBSD Manual Pages
samtools-head(1) Bioinformatics tools samtools-head(1) NAME samtools head - view SAM/BAM/CRAM file headers SYNOPSIS samtools head [-h INT] [-n INT] [FILE] DESCRIPTION By default, prints all headers from the specified input file to stan- dard output in SAM format. The input alignment file may be in SAM, BAM, or CRAM format; if no FILE is specified, standard input will be read. With appropriate options, only some of the headers and/or addi- tionally some of the alignment records will be printed. The samtools head command outputs SAM headers exactly as they appear in the input file; in particular, it never adds an @PG header itself. (Other samtools commands add such @PG headers to facilitate provenance tracking in analysis pipelines, but because samtools head never outputs more than a handful of alignment records it is unsuitable for use in such contexts anyway.) OPTIONS -h, --headers INT Display only the first INT header lines. By default, all header lines are displayed. -n, --records INT Also display the first INT alignment records. By default, no alignment records are displayed. AUTHOR Written by John Marshall from the University of Glasgow. SEE ALSO samtools(1), samtools-view(1) samtools-1.21 12 September 2024 samtools-head(1)
NAME | SYNOPSIS | DESCRIPTION | OPTIONS | AUTHOR | SEE ALSO
Want to link to this manual page? Use this URL:
<https://man.freebsd.org/cgi/man.cgi?query=samtools-head&sektion=1&manpath=FreeBSD+Ports+14.3.quarterly>