Alternatives and similar repositories for topmed_freeze3_calling:

Users that are interested in topmed_freeze3_calling are comparing it to the libraries listed below

• Yandell-Lab / VVP-pub
  VVP (VAAST Variant Prioritizer) rapidly prioritizes genetic variants
  ☆19Updated 6 years ago
• quinlan-lab / ccrhtml
  A small repo for storing the code for making the files and html for CCRs.
  ☆22Updated 5 years ago
• aehrc / TRIBES
  Finding cryptic relationships to boost disease gene detection
  ☆12Updated last year
• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆21Updated 4 years ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• statgen / gotcloud
  Genomes on the Cloud, Mapping & Variant Calling Pipelines
  ☆33Updated 7 years ago
• slzhao / QC3
  QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.
  ☆32Updated 8 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 6 years ago
• rgcgithub / clamms
  CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.
  ☆29Updated 4 years ago
• RahmanTeam / CAVA
  CAVA (Clinical Annotation of VAriants)
  ☆14Updated 6 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 2 years ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 5 months ago
• hmgu-itg / VCF-liftover
  Liftover VCF files
  ☆17Updated 8 years ago
• statgen / bravo
  Deprecated. See new version: https://github.com/statgen/bravo_api - BRowse All Variants Online
  ☆9Updated 2 years ago
• dantaki / CNVplot
  Plot CNV data with a genome viewer in R
  ☆15Updated 7 years ago
• umccr / vcf_stuff
  📊Evaluating, filtering, comparing, and visualising VCF
  ☆27Updated last year
• mikessh / mageri
  MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers
  ☆21Updated 7 years ago
• Phillip-a-richmond / AnnotateVariants
  This is a pipeline for variant annotation in the diagnosis of rare genetic disorders. It relies on open source data and has instructions …
  ☆17Updated last year
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated last week
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 3 years ago
• genomics-dev / wecall
  Fast, accurate and simple to use command line tool for variant detection in NGS data.
  ☆10Updated 5 years ago
• sigven / cacao
  Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer
  ☆21Updated 4 years ago
• bioinform / breakseq2
  BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants
  ☆24Updated 8 years ago
• ccgd-profile / BreaKmer
  A method to identify structural variation from sequencing data in target regions
  ☆31Updated 4 years ago
• pughlab / VisCap
  VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…
  ☆22Updated 5 years ago
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆28Updated 4 years ago
• TranslationalBioinformaticsIGTP / CNVbenchmarkeR
  Framework to benchmark algorithms when detecting germline copy number variations (CNVs) from NGS data
  ☆14Updated last month
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆37Updated 3 years ago
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago