fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"
☆304Nov 14, 2025Updated 3 months ago
Alternatives and similar repositories for somalier
Users that are interested in somalier are comparing it to the libraries listed below
Sorting:
- genetic variant expressions, annotation, and filtering for great good.☆273Dec 15, 2025Updated 2 months ago
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆52Apr 9, 2021Updated 4 years ago
- structural variant calling and genotyping with existing tools, but, smoothly.☆264Jun 17, 2024Updated last year
- genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF☆146Feb 17, 2026Updated 2 weeks ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆826Feb 10, 2026Updated 3 weeks ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆398Aug 30, 2025Updated 6 months ago
- don't get DUP'ed or DEL'ed by your putative SVs.☆107Dec 14, 2020Updated 5 years ago
- goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary☆225Sep 18, 2025Updated 5 months ago
- igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"☆132Oct 14, 2025Updated 4 months ago
- Pipeline for structural variant image curation and analysis.☆49Dec 5, 2021Updated 4 years ago
- Plot structural variant signals from many BAMs and CRAMs☆560Jul 13, 2024Updated last year
- using all the bits for echt rapid variant annotation and filtering☆153Feb 18, 2026Updated 2 weeks ago
- cython + htslib == fast VCF and BCF processing☆430Feb 23, 2026Updated last week
- Jasmine: SV Merging Across Samples☆241Dec 20, 2024Updated last year
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Dec 3, 2017Updated 8 years ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆58Feb 17, 2022Updated 4 years ago
- Detect novel (and reference) STR expansions from short-read data☆70Dec 6, 2025Updated 3 months ago
- Microassembly based somatic variant caller for NGS data☆154Jun 23, 2022Updated 3 years ago
- Structural variant toolkit for VCFs☆397Jan 23, 2026Updated last month
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆334May 27, 2025Updated 9 months ago
- Personal Cancer Genome Reporter (PCGR)☆274Oct 7, 2025Updated 4 months ago
- Analysis pipeline for cancer sequencing data☆112Apr 30, 2025Updated 10 months ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆143Aug 24, 2025Updated 6 months ago
- nim wrapper for htslib for parsing genomics data files☆157Dec 15, 2025Updated 2 months ago
- Fast fusion detection using kallisto☆79Jun 11, 2025Updated 8 months ago
- VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.☆99May 21, 2024Updated last year
- Structural Variant Index☆75Dec 13, 2024Updated last year
- The D4 Quantitative Data Format☆169Nov 28, 2025Updated 3 months ago
- Software program for checking sample matching for NGS data☆137Jun 20, 2024Updated last year
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆99Jun 22, 2022Updated 3 years ago
- Bayesian haplotype-based mutation calling☆323Feb 13, 2026Updated 3 weeks ago
- The next version of bwa-mem☆819Oct 15, 2025Updated 4 months ago
- A read extraction and realignment tool for next generation sequencing data☆105Oct 29, 2022Updated 3 years ago
- overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites☆34Jun 6, 2025Updated 9 months ago
- simple bioinformatics command-line (t)ools (i) (w)ished (i) (h)ad.☆44Mar 29, 2023Updated 2 years ago
- A modular annotation tool for genomic variants☆146Feb 26, 2026Updated last week
- Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer☆21Dec 8, 2020Updated 5 years ago
- Graph realignment tools for structural variants☆165Dec 8, 2022Updated 3 years ago
- A utility for merging and genotyping Illumina-style GVCFs.☆33Feb 26, 2019Updated 7 years ago