Alternatives and similar repositories for covviz:

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

• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆48Updated 5 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 6 months ago
• fakedrtom / SVAFotate
  ☆39Updated 6 months ago
• jfarek / xatlas
  ☆29Updated 2 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆49Updated 3 years ago
• DecodeGenetics / popSTR
  PopSTR - A Population based microsatellite genotyper
  ☆32Updated last year
• PacificBiosciences / svpack
  Structural variant (SV) analysis tools
  ☆36Updated 9 months ago
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆28Updated 8 months ago
• lh3 / htsbox
  My experimental tools on top of htslib. NOT OFFICIAL!!!
  ☆55Updated last year
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆34Updated 7 years ago
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆29Updated 4 years ago
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago
• brwnj / idplot
  compare sequences to a shared root reference sequence.
  ☆24Updated 3 years ago
• ALLBio / allbiotc2
  Benchmark pipeline for Structural Variation analyses, funded by the ALLBio.
  ☆24Updated 10 years ago
• genepi / haplocheck
  Phylogeny-based Contamination Detection in Mitochondrial and Whole-Genome Sequencing Studies
  ☆18Updated last year
• 1kg-ont-vienna / sv-analysis
  SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel
  ☆25Updated 2 weeks ago
• GregoryFaust / SVsim
  SVsim: a tool that generates synthetic Structural Variant calls as benchmarks to test/evaluate SV calling pipelines.
  ☆17Updated 7 years ago
• llecompte / SVJedi
  SV genotyping with long reads
  ☆40Updated last year
• MeHelmy / princess
  ☆79Updated 3 weeks ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• tommyau / bamclipper
  Remove primer sequence from BAM alignments by soft-clipping
  ☆31Updated 5 years ago
• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆64Updated last month
• YingZhou001 / Immuannot
  Immuological gene typing and annotation for genome assembly
  ☆35Updated 2 weeks ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆32Updated last year
• dillonl / graphite
  Graphite - Graph-based variant adjudication
  ☆28Updated 4 years ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆32Updated 2 months ago
• benedictpaten / marginPhase
  ☆35Updated 5 years ago