# HTSlib

- **Website:** <https://htslib.org>
- **Primary alias:** `htslib.org`

## Description

Samtools is a leading brand offering a suite of programs designed for interacting with high-throughput sequencing data. The brand comprises three repositories: Samtools for reading, writing, editing, indexing, and viewing SAM/BAM/CRAM format; BCFtools for reading, writing BCF2/VCF/gVCF files, and calling, filtering, summarizing SNP and short indel sequence variants; and HTSlib, a C library for reading/writing high-throughput sequencing data. Samtools and BCFtools utilize HTSlib internally but come with their own copies for independent building. Available for download from GitHub or Sourceforge, these tools provide extensive support for various workflows, including FASTQ to BAM/CRAM conversion, WGS/WES mapping to variant calls, and filtering of VCF files. With comprehensive documentation, manuals, specifications, and benchmarks, Samtools is a trusted resource for genomic data analysis.

## Industries

- 🧪 Science and Education
- 🧪 Biology _(under Science and Education)_
- 🖥 Computers Electronics and Technology
- 🖥 Programming and Developer Software _(under Computers Electronics and Technology)_

## Colors

| Name | Hex | Theme |
| --- | --- | --- |
| Boston Blue | #428bca | accent |
| Mine Shaft | #333333 | dark |
| Chalky | #efd09d | light |

## Fonts

- Helvetica Neue — asset _(custom)_

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_Source: <https://brandfetch.com/htslib.org>_
_See [/llms.txt](/llms.txt) for a full list of agent-readable pages, and [/auth.md](/auth.md) for how agents authenticate._