pkg.soopen package index

brew / 順位 6622

picard-tools を Homebrew, apt, Nix, apk, chocolatey, dnf, pacman, zypper, scoop, winget でインストール

picard-tools のインストール経路、実行ファイル、メタデータ、AI エージェント向けセキュリティノートを確認します。

インストールコマンドセキュリティノート

インストール

追加のインストールコマンド

macOS

Homebrew確認済み · 100%
brew install picard-tools

local Homebrew formula metadata

Linux

Debian apt確認済み · 92%
sudo apt install picard-tools

Debian stable package indexes · picard-tools · ソース: deb.debian.org

Nix確認済み · 92%
nix profile install nixpkgs#picard-tools

nixpkgs package indexes · pkgs/by-name/pi/picard-tools/package.nix · ソース: api.github.com

Alpine Linux apk確認済み · 92%
sudo apk add picard

Alpine Linux edge package indexes · picard · ソース: dl-cdn.alpinelinux.org

Fedora dnf確認済み · 92%
sudo dnf install picard

Fedora Rawhide package metadata · picard · ソース: dl.fedoraproject.org

Arch Linux pacman確認済み · 92%
sudo pacman -S picard

Arch Linux sync databases · picard · ソース: geo.mirror.pkgbuild.com

openSUSE zypper確認済み · 92%
sudo zypper install picard

openSUSE Tumbleweed package metadata · picard · ソース: download.opensuse.org

Windows

Chocolatey確認済み · 92%
choco install picard

Chocolatey community package catalog · picard · ソース: community.chocolatey.org

Scoop確認済み · 92%
scoop install extras/picard

Scoop official bucket manifest trees · bucket/picard.json · ソース: api.github.com

Windows Package Manager確認済み · 92%
winget install --id MusicBrainz.Picard -e

Windows Package Manager source index · MusicBrainz.Picard · ソース: cdn.winget.microsoft.com

概要

パッケージ概要

Tools for manipulating HTS data and formats

コマンドとエイリアス

  • picard

履歴

プロジェクトの歴史と使われ方

Picard Tools is the Broad Institute's Java command-line toolkit for manipulating, validating, converting, and collecting metrics from high-throughput sequencing data.

プロジェクトの歴史

Picard Tools is the Broad Institute's Java toolkit for manipulating high-throughput sequencing formats including SAM, BAM, CRAM, and VCF. The current public repository was established in 2014, while the toolkit belongs to the older Broad sequencing-analysis ecosystem.

Picard is implemented on HTSJDK, the Java library for accessing common sequencing formats. Its tools later became closely integrated with GATK; GATK 4 describes its mission as bringing together established GATK and Picard tools under a streamlined framework.

採用の歴史

Picard became a standard component of next-generation sequencing preprocessing because it groups many format-aware operations into one toolkit: read-group editing, sorting, conversion, duplicate marking, validation, interval handling, and sequencing QC metrics.

The Broad Institute's GATK 4 project explicitly brings together established tools from the GATK and Picard codebases. Picard is also broadly distributed through scientific and general-purpose package ecosystems, making its command semantics common in reproducible genomics pipelines.

使われ方

Practitioners invoke individual tools through the Picard jar or a package-manager-provided picard wrapper. Common pipeline steps include adding read groups, sorting alignments, marking duplicates, validating SAM/BAM files, converting formats, manipulating interval lists, and producing library or sequencing metrics.

Picard is most often scripted between alignment and variant analysis. It has no general per-user configuration or credential file; behavior is supplied through command options, JVM arguments, input data, references, and environment-specific cloud authentication when applicable.

パッケージ好きにとっての重要性

Picard is package-nerd significant because it combines a large family of narrowly scoped scientific commands in one Java artifact. Pipeline maintainers care about its Java runtime, HTSJDK compatibility, strict format validation, reference and index assumptions, metrics outputs, and behavior changes that can affect reproducibility.

Its best-known command, MarkDuplicates, made Picard a standard reference point for duplicate-marking implementations. The package often sits between an aligner and downstream variant calling, where metadata and file-format correctness are part of the scientific record.

タイムライン

  • 2014: The current broadinstitute/picard public repository was established.
  • 2019: The official repository documented Picard Toolkit as its recommended software citation.
  • GATK 4 era: Established Picard tools were incorporated into the unified GATK framework.
  • 2020s: Picard continued evolving with HTSJDK, Java, BAM, CRAM, and cloud-I/O changes.

Related projects

  • HTSJDK supplies Picard's Java format-access layer.
  • GATK incorporates established Picard tools into a broader variant-discovery toolkit.
  • The hts-specs project defines the SAM, BAM, CRAM, and VCF formats that Picard processes.

セキュリティ状態

リスクレベル: グリーン

narrow executable package without higher-risk signals.

リスク分類器

リスク グリーン · 信頼度 低 · appliance

理由

  • narrow executable package without higher-risk signals

信号

  • metadata:no-higher-risk-signals

インストール挙動

  • formula メタデータに Homebrew post-install フックは記録されていません。
  • Homebrew bottle メタデータは 1 個のプラットフォームターゲットで利用できます。
  • 1 件の実行時依存関係とともにインストールされます。

推奨レビュー

エージェントに無人実行させる前に、このツールが平文の認証情報を読むか、リモート状態を書き込むか、成果物を公開するか、プラグインを起動するかを確認してください。

実行可能ファイル

インストールされる実行可能ファイル

コマンド種類公開範囲メモ
picardcliグローバル実行可能ファイル

鮮度

バージョンと鮮度

これらの信号は、ページ生成時期、パッケージマネージャの活動、上流リリース比較を分けて示します。バージョン遅れは、証拠 URL と比較可能なバージョンがある場合だけ警告されます。

ページ生成日2026-11-04
マネージャ版3.5.0
マネージャ更新日2026-07-31
ローカルデータOK
上流not checked
検出された最新未検出

https://github.com/broadinstitute/picard

インストールメタデータ

パッケージメタデータ

パッケージキーbrew:picard-tools
バージョン3.5.0
パッケージマネージャHomebrew
パッケージマネージャページhttps://formulae.brew.sh/formula/picard-tools
ホームページhttps://broadinstitute.github.io/picard/
リポジトリhttps://github.com/broadinstitute/picard
上流ドキュメントhttps://broadinstitute.github.io/picard/
ライセンスMIT
ソースアーカイブhttps://github.com/broadinstitute/picard/releases/download/3.5.0/picard.jar
最終更新2026-07-31T21:30:01Z
Pulseupdated
依存関係openjdk
Bottle利用可能 (対象 all)
Homebrew post-install未定義
サービス宣言なし

レジストリ情報

ソースデータベース詳細

Source DatabaseHomebrew formula API
Taphomebrew/core
Full Namepicard-tools
Version Scheme0
Revision0
Bottle Stable Root URLhttps://ghcr.io/v2/homebrew/core
Deprecatedno
Disabledno
Keg Onlyno
URL Keys
  • stable

ソースデータベース一致

他のパッケージマネージャ記録

一致は外部パッケージマネージャインデックスから取得され、ローカルの Automic Vault パッケージリンクとは分けて表示されます。

Debian apt95%

libpicard-java 3.3.0+dfsg-2

Java library to manipulate SAM and BAM files

https://broadinstitute.github.io/picard/

sudo apt install libpicard-java
  • Section: java
  • Architecture: all
  • Source Package: picard-tools
  • 6 依存関係
  • 2 任意依存関係
  • normalized package name match
  • 一致条件: Picard Tools
Debian stable package indexes · deb.debian.org · Debian stable package indexes: libpicard-java from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz
Debian apt95%

libpicard-java-doc 3.3.0+dfsg-2

Documentation for the java picard library

https://broadinstitute.github.io/picard/

sudo apt install libpicard-java-doc
  • Section: doc
  • Architecture: all
  • Source Package: picard-tools
  • 1 依存関係
  • normalized package name match
  • 一致条件: Picard Tools
Debian stable package indexes · deb.debian.org · Debian stable package indexes: libpicard-java-doc from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz
Debian apt95%

picard-tools 3.3.0+dfsg-2

Command line tools to manipulate SAM and BAM files

https://broadinstitute.github.io/picard/

sudo apt install picard-tools
  • Section: science
  • Architecture: all
  • 3 依存関係
  • normalized package name match
  • 一致条件: Picard Tools
Debian stable package indexes · deb.debian.org · Debian stable package indexes: picard-tools from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz
Nix95%

picard-tools

nix profile install nixpkgs#picard-tools
  • normalized package name match
  • 一致条件: Picard Tools
nixpkgs package indexes · api.github.com · nixpkgs package indexes: pkgs/by-name/pi/picard-tools/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1
Ubuntu apt95%

libpicard-java 3.1.1+dfsg-1

Java library to manipulate SAM and BAM files

https://broadinstitute.github.io/picard/

sudo apt install libpicard-java
  • Section: universe/java
  • Architecture: all
  • Source Package: picard-tools
  • 6 依存関係
  • 2 任意依存関係
  • normalized package name match
  • 一致条件: Picard Tools
Ubuntu 24.04 LTS package indexes · archive.ubuntu.com · Ubuntu 24.04 LTS package indexes: libpicard-java from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz
Ubuntu apt95%

libpicard-java-doc 3.1.1+dfsg-1

Documentation for the java picard library

https://broadinstitute.github.io/picard/

sudo apt install libpicard-java-doc
  • Section: universe/doc
  • Architecture: all
  • Source Package: picard-tools
  • 1 依存関係
  • normalized package name match
  • 一致条件: Picard Tools
Ubuntu 24.04 LTS package indexes · archive.ubuntu.com · Ubuntu 24.04 LTS package indexes: libpicard-java-doc from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz
Ubuntu apt95%

picard-tools 3.1.1+dfsg-1

Command line tools to manipulate SAM and BAM files

https://broadinstitute.github.io/picard/

sudo apt install picard-tools
  • Section: universe/science
  • Architecture: all
  • 3 依存関係
  • normalized package name match
  • 一致条件: Picard Tools
Ubuntu 24.04 LTS package indexes · archive.ubuntu.com · Ubuntu 24.04 LTS package indexes: picard-tools from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz
Debian apt92%

picard 2.13.3-1

Next-Generation MusicBrainz audio files tagger

https://picard.musicbrainz.org/

sudo apt install picard
  • Section: sound
  • Architecture: amd64
  • 12 依存関係
  • 3 任意依存関係
  • installed executable or alias match
  • 一致条件: Picard
Debian stable package indexes · deb.debian.org · Debian stable package indexes: picard from https://deb.debian.org/debian/dists/stable/main/binary-amd64/Packages.xz
Nix92%

picard

nix profile install nixpkgs#picard
  • installed executable or alias match
  • 一致条件: Picard
nixpkgs package indexes · api.github.com · nixpkgs package indexes: pkgs/by-name/pi/picard/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1
Ubuntu apt92%

picard 2.11-1

Next-Generation MusicBrainz audio files tagger

https://picard.musicbrainz.org/

sudo apt install picard
  • Section: universe/sound
  • Architecture: amd64
  • 13 依存関係
  • 3 任意依存関係
  • installed executable or alias match
  • 一致条件: Picard
Ubuntu 24.04 LTS package indexes · archive.ubuntu.com · Ubuntu 24.04 LTS package indexes: picard from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz
apk92%

picard 2.13.3_git20251006-r2

Official MusicBrainz tagger

https://picard.musicbrainz.org/

sudo apk add picard
  • License: GPL-2.0-or-later
  • Architecture: x86_64
  • Source Package: picard
  • 1 依存関係
  • 1 提供
  • installed executable or alias match
  • 一致条件: Picard
Alpine Linux edge package indexes · dl-cdn.alpinelinux.org · Alpine Linux edge package indexes: picard from https://dl-cdn.alpinelinux.org/alpine/edge/community/x86_64/APKINDEX.tar.gz
apk92%

picard-lang 2.13.3_git20251006-r2

Official MusicBrainz tagger

https://picard.musicbrainz.org/

sudo apk add picard-lang
  • License: GPL-2.0-or-later
  • Architecture: x86_64
  • Source Package: picard
  • 1 依存関係
  • installed executable or alias match
  • 一致条件: Picard
Alpine Linux edge package indexes · dl-cdn.alpinelinux.org · Alpine Linux edge package indexes: picard-lang from https://dl-cdn.alpinelinux.org/alpine/edge/community/x86_64/APKINDEX.tar.gz
apk92%

picard-pyc 2.13.3_git20251006-r2

Precompiled Python bytecode for picard

https://picard.musicbrainz.org/

sudo apk add picard-pyc
  • License: GPL-2.0-or-later
  • Architecture: x86_64
  • Source Package: picard
  • 1 依存関係
  • installed executable or alias match
  • 一致条件: Picard
Alpine Linux edge package indexes · dl-cdn.alpinelinux.org · Alpine Linux edge package indexes: picard-pyc from https://dl-cdn.alpinelinux.org/alpine/edge/community/x86_64/APKINDEX.tar.gz
dnf92%

picard 2.13.3-9.fc45

MusicBrainz-based audio tagger

https://github.com/musicbrainz/picard

sudo dnf install picard
  • License: GPL-2.0-or-later
  • Category: Unspecified
  • Architecture: x86_64
  • Source Package: picard
  • 11 依存関係
  • 6 提供
  • installed executable or alias match
  • 一致条件: Picard
Fedora Rawhide package metadata · dl.fedoraproject.org · Fedora Rawhide package metadata: picard from https://dl.fedoraproject.org/pub/fedora/linux/development/rawhide/Everything/x86_64/os/repodata/652278618dec9c023176a80c435a32a2c8154869fb0eb662c267a54df28d77d9-primary.xml.zst
pacman92%

picard 2.13.3-3

Official MusicBrainz tagger

https://github.com/metabrainz/picard

sudo pacman -S picard
  • License: GPL-2.0-or-later
  • Architecture: x86_64
  • 11 依存関係
  • 3 任意依存関係
  • installed executable or alias match
  • 一致条件: Picard
Arch Linux sync databases · geo.mirror.pkgbuild.com · Arch Linux sync databases: picard from https://geo.mirror.pkgbuild.com/extra/os/x86_64/extra.db.tar.gz
zypper92%

picard 2.13.3-1.7

The Next Generation MusicBrainz Tagger

https://picard.musicbrainz.org

sudo zypper install picard
  • License: GPL-2.0-or-later
  • Category: Productivity/Multimedia/Sound/Utilities
  • Architecture: x86_64
  • Source Package: picard
  • 12 依存関係
  • 6 提供
  • installed executable or alias match
  • 一致条件: Picard
openSUSE Tumbleweed package metadata · download.opensuse.org · openSUSE Tumbleweed package metadata: picard from https://download.opensuse.org/tumbleweed/repo/oss/repodata/d310d5a96106e1e8872a385adf98aaa23be9db5d80937a6717314e7e7f37715065c6c748ab7ccee6475d620b46979c0fe64235fc0c46988e17edf659578fcf31-primary.xml.zst

パッケージグラフ

リンクは、ローカルのパッケージ関係グラフ、補足データ、依存関係、エコシステム一致、パッケージハブ所属から来ています。

ソース経路

リポジトリデータから生成

このページは scripts/generate-pkg-sqlite.py が生成した非公開のパッケージ SQLite アーティファクトから av-web によって提供されます。

使用ソース

  • Geiger risk classifier
  • cross-ecosystem install command graph
  • curated package history
  • external package-manager database matches
  • package relationship graph
  • package version freshness
  • package-page enrichment
  • pkg.so package database
  • pkgdb category and tag curation