samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.
☆243Aug 11, 2021Updated 5 years ago
Alternatives and similar repositories for samblaster
Users that are interested in samblaster are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Tools for working with SAM/BAM data☆613Dec 22, 2024Updated last year
- lumpy: a general probabilistic framework for structural variant discovery☆346Feb 22, 2026Updated 6 months ago
- Tools for early stage alignment file processing☆96Mar 12, 2019Updated 7 years ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆338May 27, 2025Updated last year
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆534Updated this 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.
- BAM Statistics, Feature Counting and Annotation☆155Aug 11, 2026Updated 2 weeks ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆871May 2, 2026Updated 3 months ago
- C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings☆684Mar 20, 2026Updated 5 months ago
- A flexible framework for rapid genome analysis and interpretation☆320Oct 18, 2022Updated 3 years ago
- ☆98Sep 21, 2022Updated 3 years ago
- Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …☆178Jan 7, 2020Updated 6 years ago
- A read extraction and realignment tool for next generation sequencing data☆107Oct 29, 2022Updated 3 years ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆404Jun 16, 2026Updated 2 months ago
- yaha: a flexible, sensitive and accurate DNA alignment tool designed to find optimal split-read mappings on single-end queries from 100bp…☆20Dec 6, 2017Updated 8 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- A tool set for short variant discovery in genetic sequence data.☆207May 4, 2021Updated 5 years ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆119Jun 6, 2021Updated 5 years ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆877Apr 20, 2026Updated 4 months ago
- Strelka2 germline and somatic small variant caller☆394Apr 20, 2026Updated 4 months ago
- BEDOPS: high-performance genomic feature operations☆375Apr 29, 2025Updated last year
- structural variant calling and genotyping with existing tools, but, smoothly.☆267Jun 17, 2024Updated 2 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆189May 17, 2024Updated 2 years ago
- a lightweight db framework for exploring genetic variation.☆328Apr 28, 2020Updated 6 years ago
- Structural variation caller using third generation sequencing☆676Jul 20, 2026Updated last month
- 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.
- goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary☆227Sep 18, 2025Updated 11 months ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆178Aug 22, 2024Updated 2 years ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆286May 21, 2025Updated last year
- C++ API & command-line toolkit for working with BAM data☆433May 18, 2025Updated last year
- Tools for bam file processing☆56Apr 20, 2015Updated 11 years ago
- adds sample names and read-group (RG) tags to BAM alignments☆51Dec 14, 2020Updated 5 years ago
- AdapterRemoval v3 - rapid adapter trimming, read merging, trimming, filtering, and QC☆117Aug 20, 2026Updated last week
- MUltiScale enrIchment Calling for ChIP-Seq Datasets☆23Mar 14, 2019Updated 7 years ago
- VCF-kit: Assorted utilities for the variant call format☆136May 22, 2026Updated 3 months ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆145Aug 24, 2025Updated last year
- Simple tools for working with Hi-C data☆20Dec 19, 2018Updated 7 years ago
- An efficient FASTQ manipulation suite☆139Jan 27, 2020Updated 6 years ago
- Structural variant and indel caller for mapped sequencing data☆468Oct 11, 2025Updated 10 months ago
- Bayesian haplotype-based mutation calling☆326Feb 13, 2026Updated 6 months ago
- Copy number variant detection from targeted DNA sequencing☆616Aug 18, 2026Updated last week
- VariantStore: A Large-Scale Genomic Variant Search Index☆40Jul 9, 2021Updated 5 years ago