# Installer mosdepth avec Homebrew, Nix, apt

Consultez les chemins d'installation, exécutables, métadonnées et notes de sécurité de mosdepth pour les workflows d'agents IA.

## installation

```sh
sudo av install brew:mosdepth
```

Commandes d'installation supplémentaires:

### macOS

- Homebrew (100%):

```sh
brew install mosdepth
```

  Preuve: local Homebrew formula metadata

### Linux

- Nix (92%):

```sh
nix profile install nixpkgs#mosdepth
```

  Preuve: nixpkgs package indexes: pkgs/by-name/mo/mosdepth/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1

- Ubuntu apt (92%):

```sh
sudo apt install mosdepth
```

  Preuve: Ubuntu 24.04 LTS package indexes: mosdepth from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz

## Faits du paquet

- **Clé du paquet:** brew:mosdepth
- **Gestionnaire de paquets:** Homebrew
- **Version:** 0.3.14
- **Résumé source:** Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
- **Page d'accueil:** <https://github.com/brentp/mosdepth>
- **Dépôt:** <https://github.com/brentp/mosdepth>
- **Dernière mise à jour:** 2026-07-13T04:04:09Z
- **Généré:** 2026-08-03T19:37:03+00:00

## exécutables

- mosdepth (alias)

## Comportement d'installation

- Bouteille: non disponible

## Version et fraîcheur

- page générée: 2026-08-03
- version du gestionnaire: 0.3.14
## Historique du projet et usages

mosdepth is a command-line tool for fast BAM/CRAM depth and coverage calculation across whole-genome, exome, or targeted sequencing datasets.

### Historique du projet

mosdepth was introduced by Brent S. Pedersen and Aaron R. Quinlan in a Bioinformatics paper published online in October 2017 and appearing in the March 2018 issue. The paper presented it as a quick coverage calculator for genome and exome sequencing data.

The implementation is written in Nim and uses HTSlib via hts-nim. Its algorithm tracks alignment chunk starts and ends in chromosome-sized arrays rather than using a pileup engine for every read base.

### Historique d'adoption

mosdepth gained adoption because sequencing coverage summaries are a routine need for variant calling QC, copy-number workflows, targeted panels, exomes, and whole genomes. The paper compared mosdepth with samtools, bedtools, and sambamba and showed faster runtime on a 30x genome benchmark.

The official README documents binary releases, Bioconda, Homebrew, and Docker usage, making it straightforward to package in bioinformatics environments and reproducible workflow containers.

### Modes d'utilisation

The CLI consumes position-sorted BAM or CRAM input and can report per-base depth, region summaries from BED files, fixed windows, quantized coverage, coverage thresholds, and distributions.

Users choose mosdepth when they need fast genome-wide or region-based coverage calculation and can accept the memory profile of chromosome-sized arrays.

### Pourquoi les passionnés de paquets s'y intéressent

mosdepth is notable to package maintainers because it is a compact compiled bioinformatics binary whose value comes from speed, HTSlib integration, and predictable command-line output files rather than from daemon-style services or configuration.

It is also a representative Nim-based scientific CLI in package-manager ecosystems that otherwise contain many C/C++, Python, and Perl genomics tools.

### Chronologie

- 2017: Bioinformatics article published online introducing mosdepth.
- 2018: Article appears in Bioinformatics volume 34 issue 5.
- 2025: GitHub wiki FAQ updated.
- 2026: GitHub releases list a latest release dated April 24, 2026.

### Related projects

- samtools depth, BEDTools genomecov, and sambamba are related depth/coverage tools compared in the official paper and README.
- HTSlib and hts-nim are implementation dependencies named in the README and paper.

### Sources

- <https://academic.oup.com/bioinformatics/article/34/5/867/4583630>
- <https://github.com/brentp/mosdepth>
- <https://github.com/brentp/mosdepth/wiki>
- <https://pmc.ncbi.nlm.nih.gov/articles/PMC6030888/>
- input.source_facts.package-manager


## Notes de sécurité

Aucun manifest local de gestion des secrets correspondant n'a été trouvé pour mosdepth. Les métadonnées de paquet Nucleus restent publiées ici afin que la couverture future dispose d'une URL stable.


## Autres enregistrements de gestionnaires de paquets

- Nix - mosdepth: normalized package name match | nixpkgs package indexes: pkgs/by-name/mo/mosdepth/package.nix from https://api.github.com/repos/NixOS/nixpkgs/git/trees/master?recursive=1
- Ubuntu apt - mosdepth - 0.3.6+ds-1: normalized package name match | Ubuntu 24.04 LTS package indexes: mosdepth from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | BAM/CRAM depth calculation biological sequencing | https://github.com/brentp/mosdepth
- Ubuntu apt - mosdepth-examples - 0.3.6+ds-1: normalized package name match | Ubuntu 24.04 LTS package indexes: mosdepth-examples from https://archive.ubuntu.com/ubuntu/dists/noble/universe/binary-amd64/Packages.gz | Test data for mosdepth | https://github.com/brentp/mosdepth


## Combined YAML source

View the package source record on GitHub. [combined/mosdepth.yml](https://github.com/mxcl/pkgdb/blob/main/combined/mosdepth.yml)


## Sources

- pkg.so package database
- curated package history
- pkgdb category and tag curation
- external package-manager database matches
- cross-ecosystem install command graph