# mosdepth mit Homebrew, Nix, apt installieren

Prüfe Installationswege, Executables, Metadaten und Sicherheitshinweise für mosdepth in AI-Agent-Workflows.

## Installation

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

Weitere Installationsbefehle:

### macOS

- Homebrew (100%):

```sh
brew install mosdepth
```

  Evidenz: local Homebrew formula metadata

### Linux

- Nix (92%):

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

  Evidenz: 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
```

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

## Paketfakten

- **Paketschlüssel:** brew:mosdepth
- **Paketmanager:** Homebrew
- **Version:** 0.3.14
- **Quellzusammenfassung:** Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
- **Homepage:** <https://github.com/brentp/mosdepth>
- **Repository:** <https://github.com/brentp/mosdepth>
- **Zuletzt aktualisiert:** 2026-07-13T04:04:09Z
- **Generiert:** 2026-08-03T19:37:03+00:00

## Executables

- mosdepth (Alias)

## Installationsverhalten

- Bottle: nicht verfügbar

## Version und Aktualität

- Seite generiert: 2026-08-03
- Manager-Version: 0.3.14
## Projektgeschichte und Nutzung

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

### Projektgeschichte

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.

### Adoptionsgeschichte

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.

### Wie es verwendet wird

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.

### Warum Paket-Nerds sich dafür interessieren

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.

### Zeitleiste

- 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.

### Quellen

- <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


## Sicherheitshinweise

Für mosdepth wurde kein passendes lokales Secret-Handling-Manifest gefunden. Nucleus-Paketmetadaten bleiben hier veröffentlicht, damit künftige Abdeckung eine stabile Paket-URL hat.


## Andere Paketmanager-Einträge

- 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)


## Quellen

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