Alternatives and similar repositories for shapeit5:

Users that are interested in shapeit5 are comparing it to the libraries listed below

• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆67Updated 4 months ago
• freeseek / score
  Tools to work with GWAS-VCF summary statistics files
  ☆114Updated 4 months ago
• mhguo1 / TRAPD
  Burden testing against public controls
  ☆50Updated 11 months ago
• genome-in-a-bottle / genome-stratifications
  Stratification BED files from the Global Alliance for Genomics and Health (GA4GH) Benchmarking Team and the Genome in a Bottle Consortium…
  ☆78Updated 2 years ago
• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆79Updated 3 months ago
• gatk-workflows / gatk4-exome-analysis-pipeline
  This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…
  ☆52Updated 4 years ago
• CenterForMedicalGeneticsGhent / WisecondorX
  WisecondorX — An evolved WISECONDOR
  ☆96Updated 4 months ago
• parklab / xTea
  Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
  ☆103Updated last week
• Genotek / ClassifyCNV
  ClassifyCNV: a tool for clinical annotation of copy-number variants
  ☆60Updated last year
• GeneDx / scramble
  ☆39Updated 9 months ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆103Updated 4 years ago
• gymreklab / GangSTR
  A tool for profiling long STRs from short reads
  ☆94Updated 3 years ago
• cortes-ciriano-lab / savana
  Somatic structural variant caller for long-read data
  ☆55Updated this week
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆44Updated 2 years ago
• geocarvalho / sv-cnv-studies
  Relevant papers for CNV and SV approaches
  ☆94Updated 2 months ago
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆74Updated last year
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆111Updated 6 months ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆79Updated 11 months ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆137Updated 8 months ago
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆113Updated last week
• PapenfussLab / StructuralVariantAnnotation
  R package designed to simplify structural variant analysis
  ☆71Updated 3 years ago
• rwdavies / STITCH
  STITCH - Sequencing To Imputation Through Constructing Haplotypes
  ☆78Updated 3 weeks ago
• eQTL-Catalogue / qtlmap
  Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue
  ☆46Updated last week
• Illumina / Polaris
  Data and information about the Polaris study
  ☆53Updated 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.
  ☆69Updated last year
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆100Updated last week
• PharmGKB / PGxPOP
  PGxPOP
  ☆16Updated 2 years ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆96Updated last year
• tderrien / FEELnc
  FEELnc : FlExible Extraction of LncRNA
  ☆84Updated 4 months ago
• mquinodo / AutoMap
  Tool to find regions of homozygosity (ROHs) from sequencing data.
  ☆31Updated 7 months ago