Alternatives and similar repositories for nanopore

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

• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated last month
• giesselmann / nanopype
  Snakemake pipelines for nanopore sequencing data archiving and processing
  ☆90Updated 3 years ago
• GenomiqueENS / toulligQC
  A post sequencing QC tool for Oxford Nanopore sequencers
  ☆98Updated 3 months ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆82Updated 2 years ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆97Updated last year
• CshlSiepelLab / phast
  PHAST
  ☆73Updated 3 weeks ago
• parklab / bamsnap
  ☆122Updated 7 months ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆118Updated 2 months ago
• nanoporetech / ont-assembly-polish
  ONT assembly and Illumina polishing pipeline
  ☆89Updated 4 years ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆91Updated 5 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆105Updated 2 years ago
• epi2me-labs / wf-basecalling
  ☆40Updated this week
• sujaikumar / assemblage
  Tools for working with second gen assemblies, fasta sequences, etc
  ☆93Updated 8 years ago
• benedictpaten / marginAlign
  UCSC Nanopore
  ☆43Updated 5 years ago
• jstjohn / SeqPrep
  Tool for stripping adaptors and/or merging paired reads with overlap into single reads.
  ☆143Updated 8 years ago
• Oshlack / Corset
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆71Updated 3 years ago
• SorenKarst / longread_umi
  ☆78Updated 4 years ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆91Updated 4 years ago
• NAL-i5K / GFF3toolkit
  Python programs for processing GFF3 files
  ☆98Updated last year
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆85Updated 7 years ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆102Updated 4 years ago
• dzerbino / oases
  De novo transcriptome assembler for short reads
  ☆62Updated 7 years ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆129Updated 10 months ago
• gencorefacility / variant-calling-pipeline-gatk4
  Variant Calling Pipeline Using GATK4 and Nextflow
  ☆56Updated 2 years ago
• MariaNattestad / Assemblytics
  Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…
  ☆141Updated 7 months ago
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆105Updated last week
• jgurtowski / nanocorr
  Error correction for Oxford Nanopore data
  ☆47Updated 4 years ago
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆100Updated 3 weeks ago