Alternatives and similar repositories for pipeline-structural-variation

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

• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆227Updated 9 months ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆159Updated 7 months ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆187Updated last year
• eldariont / svim
  Structural Variant Identification Method using Long Reads
  ☆175Updated 4 years ago
• epi2me-labs / wf-human-variation
  ☆134Updated this week
• nanoporetech / rerio
  Research release basecalling models and configurations
  ☆115Updated 4 months ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆125Updated 2 months ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆82Updated 3 years ago
• Illumina / paragraph
  Graph realignment tools for structural variants
  ☆161Updated 2 years ago
• adamewing / methylartist
  Tools for plotting methylation data in various ways
  ☆160Updated this week
• MariaNattestad / Assemblytics
  Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…
  ☆145Updated 2 months ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆222Updated 7 months ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆171Updated last year
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆158Updated 2 years ago
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆146Updated this week
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 4 years ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆204Updated 2 weeks ago
• ComparativeGenomicsToolkit / hal
  Hierarchical Alignment Format
  ☆171Updated 3 weeks ago
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆104Updated 4 months ago
• parklab / bamsnap
  ☆123Updated 2 months ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 4 years ago
• epi2me-labs / wf-transcriptomes
  ☆104Updated 2 months ago
• PacificBiosciences / ccs
  CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)
  ☆123Updated last year
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆92Updated 5 years ago
• ruanjue / smartdenovo
  Ultra-fast de novo assembler using long noisy reads
  ☆133Updated 4 years ago
• PacificBiosciences / pb-CpG-tools
  Collection of tools for the analysis of CpG data
  ☆95Updated 2 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆142Updated 2 months ago
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆147Updated 2 months ago
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago