jmonlong/PopSV external links

---

GitHub - View repository

GitHub.dev - Open in online code editor

Star history - Growth chart over time

deps.dev - Dependencies and security vulnerabilities

Gitingest - Export source code for LLM usage

Repomix - Export source code for LLM usage

uithub - Export source code for LLM usage

Close

jmonlong/PopSV

Readme badge preview -

If you own this repo, copy the snippet below and add it to your README.md

---

Copy

[![RelatedRepos](https://img.shields.io/badge/related-repos-yellow)](https://relatedrepos.com/gh/jmonlong/PopSV)

Close

jmonlong / PopSVView on GitHubMore

• External links
• Readme badge

Population-based detection of structural variation from High-Throughput Sequencing.

☆33Aug 9, 2022Updated 3 years ago

Alternatives and similar repositories for PopSV

Users that are interested in PopSV are comparing it to the libraries listed below

• kehrlab / PopDel

  View on GitHub
  Population-wide Deletion Calling
  ☆35Apr 16, 2025Updated 10 months ago
• Gabaldonlab / haplotypo

  View on GitHub
  This is the Haplotypo repository
  ☆22May 24, 2024Updated last year
• Illumina / paragraph

  View on GitHub
  Graph realignment tools for structural variants
  ☆165Dec 8, 2022Updated 3 years ago
• zeeev / smartie-sv

  View on GitHub
  calling SVs from Blasr contig level alignments
  ☆54Mar 9, 2018Updated 7 years ago
• ChaissonLab / danbing-tk

  View on GitHub
  Toolkit for VNTR genotyping and repeat-pan genome graph construction
  ☆31Aug 18, 2025Updated 6 months ago
• zeeev / wham

  View on GitHub
  Structural variant detection and association testing
  ☆108Feb 2, 2023Updated 3 years ago
• GonzalezLab / T-lex3

  View on GitHub
  ☆15Jun 12, 2020Updated 5 years ago
• DecodeGenetics / LRcaller

  View on GitHub
  ☆16Jan 10, 2022Updated 4 years ago
• SFUStatgen / LDheatmap

  View on GitHub
  ☆20Feb 24, 2023Updated 3 years ago
• arnederoeck / NanoSatellite

  View on GitHub
  Dynamic time warping of Oxford Nanopore squiggle data to characterize tandem repeats.
  ☆32Jul 2, 2020Updated 5 years ago
• PacificBiosciences / svpack

  View on GitHub
  Structural variant (SV) analysis tools
  ☆40Jul 1, 2024Updated last year
• stat-lab / MOPline

  View on GitHub
  Detection and genotyping of structural variants
  ☆20Oct 17, 2025Updated 4 months ago
• jmonlong / sveval

  View on GitHub
  Functions to compare a SV call sets against a truth set.
  ☆30Jun 18, 2025Updated 8 months ago
• rdemolgen / SavvySuite

  View on GitHub
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆31Feb 10, 2026Updated 2 weeks ago
• DecodeGenetics / graphtyper

  View on GitHub
  Population-scale genotyping using pangenome graphs
  ☆196Jan 9, 2025Updated last year
• taylor-lab / annotateMaf

  View on GitHub
  Add functional variant annotation to MAF file
  ☆11Nov 20, 2024Updated last year
• lh3 / naivepca

  View on GitHub
  Naive PCA for genotype data
  ☆10Jul 27, 2016Updated 9 years ago
• pepebonet / DeepMP

  View on GitHub
  DeepMP is a computational tool to detect DNA modifications in Nanopore sequencing data
  ☆28Mar 18, 2022Updated 3 years ago
• nygenome / Lancet2

  View on GitHub
  v2.x of the microassembly based somatic variant caller
  ☆23Jul 16, 2025Updated 7 months ago
• hall-lab / sv-pipeline

  View on GitHub
  Pipeline for structural variation detection in cohorts
  ☆52Sep 14, 2021Updated 4 years ago
• mlinderm / npsv

  View on GitHub
  Non-parametric structural variant genotyper
  ☆15Nov 18, 2021Updated 4 years ago
• PapenfussLab / sv_benchmark

  View on GitHub
  Comprehensive benchmark of structural variant callers
  ☆48Feb 4, 2021Updated 5 years ago
• DReichLab / adna

  View on GitHub
  Processing WGS aDNA data using the ReichLab protocol
  ☆13Mar 8, 2019Updated 6 years ago
• Parsoa / Nebula

  View on GitHub
  Ultra-efficient mapping-free structural variation genotyper
  ☆20Jul 28, 2021Updated 4 years ago
• DecodeGenetics / svimmer

  View on GitHub
  Structural variant merging tool
  ☆57Aug 23, 2024Updated last year
• edawson / svaha2

  View on GitHub
  Linear-time, low-memory construction of variation graphs
  ☆20Feb 3, 2020Updated 6 years ago
• hall-lab / svtyper

  View on GitHub
  Bayesian genotyper for structural variants
  ☆136Mar 6, 2021Updated 4 years ago
• raulossio / VCF-plotein

  View on GitHub
  Visualisation and prioritisation of genomic variants from human exome sequencing projects
  ☆13Apr 23, 2019Updated 6 years ago
• jts / mbtools

  View on GitHub
  ☆14Sep 11, 2023Updated 2 years ago
• gui11aume / mmp

  View on GitHub
  MEM mapper prototype
  ☆13Nov 28, 2020Updated 5 years ago
• Daniel-Liu-c0deb0t / ANTISEQUENCE

  View on GitHub
  Rust library for processing sequencing reads.
  ☆25Sep 2, 2024Updated last year
• BilkentCompGen / tardis

  View on GitHub
  Toolkit for automated and rapid discovery of structural variants
  ☆24Aug 24, 2023Updated 2 years ago
• ktan8 / nanopore_telomere_basecall

  View on GitHub
  ☆15Aug 22, 2023Updated 2 years ago
• brwnj / covviz

  View on GitHub
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆58Feb 17, 2022Updated 4 years ago
• bio-ontology-research-group / DeepSVP

  View on GitHub
  Prioritizing Copy Number Variants (CNV) using Phenotype and Gene Functional Similarity
  ☆17Mar 10, 2022Updated 3 years ago
• brentp / smoove

  View on GitHub
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆264Jun 17, 2024Updated last year
• mkirsche / Jasmine

  View on GitHub
  Jasmine: SV Merging Across Samples
  ☆241Dec 20, 2024Updated last year
• humanlongevity / tredparse

  View on GitHub
  TREDPARSE: HLI Short Tandem Repeat (STR) caller
  ☆25Aug 20, 2020Updated 5 years ago
• vpc-ccg / sedef

  View on GitHub
  Identification of segmental duplications in the genome
  ☆27Mar 1, 2022Updated 4 years ago