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 2 months ago
• ryanlayer / stix
  Structural Variant Index
  ☆75Updated 10 months ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 4 years ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• genomic-medicine-sweden / nallo
  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
  ☆35Updated 2 weeks 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
  ☆72Updated last year
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆79Updated last year
• MultiQC / MegaQC
  Web application to collect and visualise data across multiple MultiQC runs.
  ☆95Updated 10 months ago
• ssadedin / bazam
  A read extraction and realignment tool for next generation sequencing data
  ☆103Updated 2 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.
  ☆74Updated 3 months ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆142Updated last month
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆109Updated 3 weeks ago
• fakedrtom / SVAFotate
  ☆44Updated last year
• nygenome / Conpair
  Concordance and contamination estimator for tumor–normal pairs
  ☆58Updated 11 months ago
• Illumina / ExpansionHunterDenovo
  A suite of tools for detecting expansions of short tandem repeats
  ☆83Updated 2 years ago
• Illumina / Pisces
  Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.
  ☆98Updated 3 years ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆129Updated 2 years ago
• Illumina / Polaris
  Data and information about the Polaris study
  ☆53Updated 5 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆107Updated this week
• Clinical-Genomics / stranger
  Tool to annotate outfiles from ExpansionHunter and TRGT with the pathologic implications of the repeat
  ☆36Updated 2 months ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• vembrane / vembrane
  vembrane filters VCF records using python expressions
  ☆65Updated 3 weeks ago
• deaconjs / ThousandVariantCallersRepo
  Thousand Variant Callers Project Repository
  ☆73Updated 6 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆150Updated 2 weeks ago
• pwwang / vcfstats
  Powerful statistics for VCF files
  ☆72Updated 3 months ago
• lh3 / bgt
  Flexible genotype query among 30,000+ samples whole-genome
  ☆94Updated 6 years ago
• dantaki / SV2
  Support Vector Structural Variation Genotyper
  ☆58Updated 5 years ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆92Updated 5 years ago