Alternatives and similar repositories for parabricks-nextflow

Users that are interested in parabricks-nextflow are comparing it to the libraries listed below

• PacificBiosciences / HiFi-human-WGS-WDL
  ☆70Updated last month
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆77Updated 6 months ago
• EGA-archive / ont2cram
  Oxford Nanopore HDF/Fast5 to CRAM conversion tool
  ☆22Updated 5 years ago
• genepi / nf-gwas
  A nextflow pipeline to perform state-of-the-art genome-wide association studies.
  ☆75Updated last week
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆49Updated last year
• stjudecloud / workflows
  Bioinformatics workflows developed for and used on the St. Jude Cloud project.
  ☆38Updated this week
• human-pangenomics / HG002_Data_Freeze_v1.0
  Human Pangenome Reference Consortium - HG002 Data Freeze (v1.0)
  ☆80Updated 3 years ago
• roryk / tiny-test-data
  Super small biological datasets for unit testing
  ☆61Updated 5 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 8 months ago
• HKU-BAL / ClairS-TO
  ClairS-TO - a deep-learning method for tumor-only somatic variant calling
  ☆70Updated this week
• bioinformatics-centre / BayesTyper
  A method for variant graph genotyping based on exact alignment of k-mers
  ☆86Updated 6 years ago
• EI-CoreBioinformatics / mikado
  Mikado is a lightweight Python3 pipeline whose purpose is to facilitate the identification of expressed loci from RNA-Seq data * and to s…
  ☆104Updated 8 months ago
• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆90Updated 4 years ago
• Oshlack / STRetch
  Method for detecting STR expansions from short-read sequencing data
  ☆63Updated 3 years ago
• nanoporetech / katuali
  Analysis pipelines from Oxford Nanopore Technologies' Research Division
  ☆50Updated 5 years ago
• nf-core / variantbenchmarking
  Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
  ☆36Updated this week
• broadinstitute / long-read-pipelines
  Long read production pipelines
  ☆149Updated this week
• gatk-workflows / broad-prod-wgs-germline-snps-indels
  Workflows for germline short variant discovery in WGS data. PairedEndSingleSampleWf has been superseded in Broad production by https://gi…
  ☆56Updated 5 years ago
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆113Updated last year
• dnanexus-rnd / GLnexus
  Scalable gVCF merging and joint variant calling for population sequencing projects
  ☆171Updated last year
• human-pangenomics / hpp_pangenome_resources
  ☆119Updated 2 years ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆55Updated last year
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆72Updated last year
• human-pangenomics / hpp_production_workflows
  WDL’s and Dockerfiles for assembly QC process
  ☆69Updated 2 months ago
• snakemake-workflows / dna-seq-varlociraptor
  A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, …
  ☆86Updated this week
• PacificBiosciences / HiPhase
  Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads
  ☆78Updated 6 months ago
• nextflow-io / nf-schema
  Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines
  ☆45Updated 3 weeks ago
• sigven / cpsr
  Cancer Predisposition Sequencing Reporter (CPSR)
  ☆62Updated last month
• NVIDIA / VariantWorks
  Deep Learning based variant calling toolkit - https://clara-parabricks.github.io/VariantWorks/
  ☆47Updated last month
• lh3 / ref-gen
  Human reference genome analysis sets
  ☆55Updated 2 years ago