Alternatives and similar repositories for WGS-pipeline

Users that are interested in WGS-pipeline are comparing it to the libraries listed below

• freeseek / gwaspipeline
  ☆40Updated 7 years ago
• nriddiford / cnvPlotteR
  Advanced plotting functions for CNV data generated by CNV-Seq and Control Freec
  ☆13Updated 4 years ago
• talkowski-lab / SV-Adjudicator
  ☆25Updated 7 years ago
• statgen / topmed_freeze3_calling
  TOPMed Freeze 3 variant calling pipeline
  ☆9Updated 6 years ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 4 years ago
• RahmanTeam / CAVA
  CAVA (Clinical Annotation of VAriants)
  ☆14Updated 6 years ago
• freeseek / kgp2anc
  A protocol to estimate global ancestry starting from raw Illumina data
  ☆11Updated 5 years ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆15Updated 2 years ago
• macarthur-lab / tx_annotation
  Code associated with 2019 manuscript entitled "Transcript expression-aware annotation improves rare variant discovery and interpretation…
  ☆33Updated 3 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 6 months ago
• sritchie73 / liftOverPlink
  A wrapper for liftOver for converting plink genotype data between different genome reference builds
  ☆52Updated 6 years ago
• macarthur-lab / gnomad_browser
  gnomAD browser pre-ASHG 2018
  ☆33Updated 4 years ago
• mskilab-org / fishHook
  R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after cor…
  ☆30Updated 2 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆35Updated 2 years ago
• FusionAnnotator / FusionAnnotator
  FusionAnnotator source code
  ☆15Updated last year
• MRCIEU / gwas2vcf
  Convert GWAS summary statistics to VCF
  ☆48Updated 2 years ago
• mhguo1 / TRAPD
  Burden testing against public controls
  ☆50Updated last year
• howrigan / array_CNV_analysis
  Example R scripts to run burden and association analysis on array CNV data
  ☆14Updated 8 years ago
• UW-GAC / GENESIS
  GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzing genetic data from samples with popula…
  ☆38Updated 3 weeks ago
• nghiavtr / FuSeq
  ☆33Updated 3 years ago
• statgen / topmed_variant_calling
  ☆24Updated 7 months ago
• zhouzilu / iCNV
  Integrated copy number variation detection toolset
  ☆26Updated 5 years ago
• cancerit / ClusterSV
  SV clustering
  ☆28Updated 4 years ago
• mskcc / facets-suite
  Utility functions for FACETS
  ☆38Updated last year
• CshlSiepelLab / LINSIGHT
  ☆26Updated last month
• cancerit / alleleCount
  Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…
  ☆45Updated 2 years ago
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 7 years ago
• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆21Updated 4 years ago
• talkowski-lab / rCNV2
  Aggregation and analyses of rare CNVs across diseases
  ☆14Updated 2 years ago
• carjed / helmsman
  highly-efficient & lightweight mutation signature matrix aggregation
  ☆18Updated 3 years ago