Alternatives and similar repositories for parabricks-nextflow

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

• HKU-BAL / ClairS-TO
  ClairS-TO - a deep-learning method for tumor-only somatic variant calling
  ☆66Updated 4 months ago
• stjudecloud / workflows
  Bioinformatics workflows developed for and used on the St. Jude Cloud project.
  ☆36Updated this week
• PacificBiosciences / HiFi-human-WGS-WDL
  ☆66Updated last week
• genepi / nf-gwas
  A nextflow pipeline to perform state-of-the-art genome-wide association studies.
  ☆71Updated 4 months ago
• EGA-archive / ont2cram
  Oxford Nanopore HDF/Fast5 to CRAM conversion tool
  ☆22Updated 5 years ago
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆49Updated last year
• nanoporetech / katuali
  Analysis pipelines from Oxford Nanopore Technologies' Research Division
  ☆50Updated 4 years ago
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆75Updated 4 months ago
• epi2me-labs / pychopper
  cDNA read preprocessing
  ☆77Updated last year
• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆92Updated 4 years ago
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆110Updated last year
• human-pangenomics / hpp_pangenome_resources
  ☆117Updated last year
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 5 months ago
• HKU-BAL / ClairS
  ClairS - a deep-learning method for long-read somatic small variant calling
  ☆87Updated last month
• Oshlack / JAFFA
  JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions
  ☆98Updated 2 months ago
• nf-core / variantbenchmarking
  Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
  ☆34Updated last week
• nf-core / configs
  Config files used to define parameters specific to compute environments at different Institutions
  ☆103Updated last week
• roryk / tiny-test-data
  Super small biological datasets for unit testing
  ☆61Updated 5 years ago
• nextflow-io / nf-schema
  Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines
  ☆44Updated this week
• PacificBiosciences / HiPhase
  Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads
  ☆76Updated 4 months ago
• TimD1 / vcfdist
  vcfdist: Accurately benchmarking phased variant calls
  ☆83Updated 2 weeks 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…
  ☆101Updated 6 months ago
• dnanexus-rnd / GLnexus
  Scalable gVCF merging and joint variant calling for population sequencing projects
  ☆164Updated last year
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆46Updated 4 years ago
• epi2me-labs / wf-basecalling
  ☆42Updated last week
• friend1ws / nanomonsv
  SV detection tool for nanopore sequence reads
  ☆93Updated 4 months ago
• broadinstitute / long-read-pipelines
  Long read production pipelines
  ☆147Updated last week
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆82Updated 3 years ago
• bioinformatics-centre / BayesTyper
  A method for variant graph genotyping based on exact alignment of k-mers
  ☆87Updated 6 years 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