Alternatives and similar repositories for quality-control-wgs

Users that are interested in quality-control-wgs are comparing it to the libraries listed below

• c-BIG / NPM-sample-qc
  reference implementation of GA4GH WGS Quality Control Standards
  ☆11Updated 3 weeks ago
• MultiQC / MegaQC
  Web application to collect and visualise data across multiple MultiQC runs.
  ☆95Updated last year
• ryanlayer / stix
  Structural Variant Index
  ☆75Updated last year
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆107Updated 5 years ago
• genomic-medicine-sweden / nallo
  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
  ☆40Updated this week
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆115Updated last week
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 5 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated 2 months ago
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 7 years ago
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆75Updated last year
• fakedrtom / SVAFotate
  ☆44Updated last year
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆58Updated 3 years ago
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆77Updated last week
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆92Updated 5 years ago
• Illumina / ExpansionHunterDenovo
  A suite of tools for detecting expansions of short tandem repeats
  ☆83Updated 2 years ago
• Clinical-Genomics / stranger
  Tool to annotate outfiles from ExpansionHunter and TRGT with the pathologic implications of the repeat
  ☆37Updated this week
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆152Updated 2 weeks ago
• ssadedin / bazam
  A read extraction and realignment tool for next generation sequencing data
  ☆103Updated 3 years ago
• TimD1 / vcfdist
  vcfdist: Accurately benchmarking phased variant calls
  ☆84Updated 3 months ago
• nhansen / SVanalyzer
  Tools for the analysis of structural variation in genomes
  ☆81Updated last year
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆52Updated 5 years ago
• vplagnol / ExomeDepth
  ExomeDepth R package for the detection of copy number variants in exomes and gene panels using high throughput DNA sequencing data.
  ☆76Updated 5 months ago
• HipSTR-Tool / HipSTR
  Genotype and phase short tandem repeats using Illumina whole-genome sequencing data
  ☆31Updated 4 years ago
• deaconjs / ThousandVariantCallersRepo
  Thousand Variant Callers Project Repository
  ☆74Updated 6 years ago
• PacificBiosciences / pb-human-wgs-workflow-snakemake
  DEPRECATED - Workflow for the comprehensive detection and prioritization of variants in human genomes with PacBio HiFi reads
  ☆39Updated 2 years ago
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆131Updated 2 months ago
• fritzsedlazeck / Spectre
  Copy number caller for long read data including SNV utilization
  ☆68Updated 8 months ago
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆45Updated 5 years ago
• parklab / bamsnap
  ☆122Updated 4 months ago