tools for adding mutations to existing .bam files, used for testing mutation callers
☆252Aug 5, 2026Updated last month
Alternatives and similar repositories for bamsurgeon
Users that are interested in bamsurgeon are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆337May 27, 2025Updated last year
- VarDict☆204Jan 5, 2024Updated 2 years ago
- Microassembly based somatic variant caller for NGS data☆153Jun 23, 2022Updated 4 years ago
- Assembly Based ReAligner☆75May 24, 2018Updated 8 years ago
- Somatic Variant Call for ctDNA☆11Mar 1, 2016Updated 10 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Haplotype VCF comparison tools☆472Dec 7, 2023Updated 2 years ago
- Strelka2 germline and somatic small variant caller☆393Apr 20, 2026Updated 5 months ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆285May 21, 2025Updated last year
- A tool set for short variant discovery in genetic sequence data.☆207May 4, 2021Updated 5 years ago
- An ensemble approach to accurately detect somatic mutations using SomaticSeq☆207Aug 23, 2026Updated last month
- Generates synthetic cancer genomes with different contamination level and intra-tumor heterogeneity and devoid of any synthetic element☆11Sep 21, 2020Updated 6 years ago
- VarDict Java port☆140Jan 5, 2024Updated 2 years ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 6 years ago
- a lightweight db framework for exploring genetic variation.☆327Apr 28, 2020Updated 6 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆37Jul 30, 2020Updated 6 years ago
- NEAT read simulation tools☆101Jun 22, 2022Updated 4 years ago
- A flexible framework for rapid genome analysis and interpretation☆320Oct 18, 2022Updated 3 years ago
- Fast fusion detection using kallisto☆80Jun 11, 2025Updated last year
- Tools for working with SAM/BAM data☆613Dec 22, 2024Updated last year
- annotate a VCF with other VCFs/BEDs/tabixed files☆403Jun 16, 2026Updated 3 months ago
- filtering trio-based genetic variants in VCFs for clinical review☆22Aug 18, 2020Updated 6 years ago
- Structural variant toolkit for VCFs☆423Updated this week
- LoFreq Star: Sensitive variant calling from sequencing data☆111Oct 16, 2025Updated 11 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.
- Canvas - Copy number variant (CNV) calling from DNA sequencing data☆129Apr 20, 2026Updated 5 months ago
- Tools for working with genomic and high throughput sequencing data.☆372Aug 20, 2026Updated last month
- This repository contains data indexes from NIST's Genome in a Bottle project.☆272Nov 30, 2023Updated 2 years ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆877May 2, 2026Updated 4 months ago
- This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file…☆130Feb 13, 2020Updated 6 years ago
- Platypus Variant Caller☆107May 26, 2026Updated 3 months ago
- Analysis pipeline for cancer sequencing data☆112Apr 24, 2026Updated 4 months ago
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆54Jun 5, 2017Updated 9 years ago
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Dec 26, 2023Updated 2 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Bayesian haplotype-based mutation calling☆325Feb 13, 2026Updated 7 months ago
- ABRA2☆96Dec 2, 2022Updated 3 years ago
- TransVar - multiway annotator for precision medicine☆128Apr 19, 2023Updated 3 years ago
- ☆36Mar 16, 2021Updated 5 years ago
- iCAGES (integrated CAncer GEnome Score) is an effective tool for prioritizing cancer driver genes for a patient☆14Aug 18, 2022Updated 4 years ago
- robust matching of small variant datasets using flexible scoring schemes☆12Mar 26, 2020Updated 6 years ago
- Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls☆212Mar 19, 2021Updated 5 years ago