fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
☆851May 2, 2026Updated 2 weeks ago
Alternatives and similar repositories for mosdepth
Users that are interested in mosdepth are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Plot structural variant signals from many BAMs and CRAMs☆567Jul 13, 2024Updated last year
- The next version of bwa-mem☆831Oct 15, 2025Updated 7 months ago
- structural variant calling and genotyping with existing tools, but, smoothly.☆264Jun 17, 2024Updated last year
- Structural variation caller using third generation sequencing☆654Updated this week
- goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary☆226Sep 18, 2025Updated 8 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"☆314Apr 24, 2026Updated 3 weeks ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,183Apr 25, 2026Updated 3 weeks ago
- Toolset for SV simulation, comparison and filtering☆417Dec 1, 2023Updated 2 years ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆404May 1, 2026Updated 3 weeks ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆335May 27, 2025Updated 11 months ago
- Jasmine: SV Merging Across Samples☆252Dec 20, 2024Updated last year
- Bayesian haplotype-based mutation calling☆323Feb 13, 2026Updated 3 months ago
- Strelka2 germline and somatic small variant caller☆394Apr 20, 2026Updated last month
- genetic variant expressions, annotation, and filtering for great good.☆274May 12, 2026Updated last week
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆283May 21, 2025Updated last year
- nim wrapper for htslib for parsing genomics data files☆158May 2, 2026Updated 2 weeks ago
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,361Apr 24, 2026Updated 3 weeks ago
- Structural variant toolkit for VCFs☆410Mar 21, 2026Updated 2 months ago
- Structural variant and indel caller for mapped sequencing data☆465Oct 11, 2025Updated 7 months ago
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆515May 15, 2026Updated last week
- Tools for working with SAM/BAM data☆610Dec 22, 2024Updated last year
- A fast approximate aligner for long DNA sequences☆288Oct 11, 2024Updated last year
- Annotation and Ranking of Structural Variation☆296May 12, 2026Updated last week
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- cython + htslib == fast VCF and BCF processing☆441May 14, 2026Updated last week
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,450May 14, 2026Updated last week
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆309Mar 18, 2024Updated 2 years ago
- Haplotype VCF comparison tools☆467Dec 7, 2023Updated 2 years ago
- De novo assembler for single molecule sequencing reads using repeat graphs☆930Apr 3, 2026Updated last month
- Long read based human genomic structural variation detection with cuteSV☆286Mar 26, 2026Updated last month
- An accurate GFF3/GTF lift over pipeline☆537Aug 1, 2023Updated 2 years ago
- Read-based phasing of genomic variants, also called haplotype assembly☆416Dec 31, 2025Updated 4 months ago
- C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings☆678Mar 20, 2026Updated 2 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- lumpy: a general probabilistic framework for structural variant discovery☆342Feb 22, 2026Updated 3 months ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆99Apr 20, 2026Updated last month
- ☆286Dec 29, 2025Updated 4 months ago
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,554May 13, 2026Updated last week
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆51Apr 9, 2021Updated 5 years ago
- don't get DUP'ed or DEL'ed by your putative SVs.☆108Dec 14, 2020Updated 5 years ago
- Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.☆415Apr 1, 2026Updated last month