Alternatives and similar repositories for STEAK

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

• bioinform / breakseq2
  BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants
  ☆24Updated 9 years ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 7 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• gzhmat / ShinyCNV
  a Shiny/R application to view and annotate copy number variations
  ☆27Updated 2 years ago
• dantaki / CNVplot
  Plot CNV data with a genome viewer in R
  ☆15Updated 8 years ago
• lh3 / sgdp-fermi
  FermiKit small variant calls for public SGDP samples
  ☆17Updated 8 years ago
• DecodeGenetics / popSTR
  PopSTR - A Population based microsatellite genotyper
  ☆33Updated last year
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆29Updated 10 months ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• clemgoub / TypeTE
  Genotyping of segregating mobile elements insertions
  ☆19Updated 3 years ago
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆29Updated 5 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• jmonlong / sveval
  Functions to compare a SV call sets against a truth set.
  ☆29Updated last year
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 4 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 3 years ago
• dellytools / svprops
  Computes various SV statistics
  ☆14Updated last year
• Mesh89 / TranSurVeyor
  A transposition caller.
  ☆10Updated last year
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 2 months ago
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago
• dellytools / sansa
  Structural variant VCF annotation, duplicate removal and comparison
  ☆33Updated 2 months ago
• molgenis / CoNVaDING
  Copy Number Variation Detection In Next-generation sequencing Gene panels was designed for small (single-exon) copy number variation (CNV…
  ☆21Updated 4 years ago
• ljdursi / mergevcf
  Python package and routines for merging VCF files
  ☆29Updated 4 years ago
• nygenome / Lancet2
  v2.x of the microassembly based somatic variant caller
  ☆21Updated 2 weeks ago
• ALLBio / allbiotc2
  Benchmark pipeline for Structural Variation analyses, funded by the ALLBio.
  ☆24Updated 10 years ago
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆34Updated 7 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• scottgigante / haplotyped-methylome
  Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  ☆23Updated 6 years ago
• jfarek / xatlas
  ☆29Updated 2 years ago
• ccbiolab / svpluscnv
  Integrative analysis of complex structural variants
  ☆21Updated 4 years ago
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆27Updated 11 months ago