---
name: "PicardCommandLine"
section: "1"
platform: "linux"
package: "picard-tools"
version: "3.3.0+dfsg-2"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/PicardCommandLine"
---

# PicardCommandLine(1)

manipulate SAM and BAM files

## NAME

PicardCommandLine - manipulate SAM and BAM files

## SYNOPSIS

**PicardCommandLine** *COMMAND* \[*OPTION*\]...

## DESCRIPTION

SAM (Sequence Alignment/Map) format is a generic format for storing large nucleotide sequence alignments.

Picard Tools includes lots of utilities to manipulate SAM and BAM files. The whole list with a short description can be obtained by running **PicardCommandLine -h**.

Description of the options and parameters of all commands can be obtained by running **PicardCommandLine COMMAND -h**.

## REPORTING BUGS

samtools-devel@lists.sourceforge.net

## COPYRIGHT

Copyright 2010 The Broad Institute

## SEE ALSO

http://broadinstitute.github.io/picard/