Alternatives and similar repositories for stringtie2-initial-release

Users that are interested in stringtie2-initial-release are comparing it to the libraries listed below

• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• mcfrith / tandem-genotypes
  ☆48Updated last year
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆36Updated last week
• bcgsc / goldrush
  Linear-time de novo Long Read Assembler
  ☆42Updated 5 months ago
• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated 2 years ago
• MeHelmy / princess
  ☆80Updated 4 months ago
• smehringer / SViper
  Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.
  ☆32Updated 2 years ago
• jason-weirather / AlignQC
  Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and r…
  ☆47Updated 6 years ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆36Updated last month
• Maggi-Chen / FusionSeeker
  A gene fusion caller for long-read transcriptome sequencing data.
  ☆19Updated last year
• Psy-Fer / blue-crab
  lossless nanopore pod5 <=> s/blow5 file conversion
  ☆40Updated last week
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 4 years ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆28Updated last year
• shilpagarg / DipAsm
  ☆76Updated 5 years ago
• kage-genotyper / kage
  Alignment-free genotyper for SNPs and short indels, implemented in Python.
  ☆49Updated 4 months ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated last year
• HKU-BAL / SENSV
  A tool to detect structural variant
  ☆18Updated 2 years ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆46Updated 4 years ago
• benedictpaten / marginAlign
  UCSC Nanopore
  ☆43Updated 5 years ago
• novoalab / modPhred
  modPhred is a pipeline for detection of DNA/RNA modifications from raw ONT data
  ☆16Updated last year
• llecompte / SVJedi
  SV genotyping with long reads
  ☆39Updated 2 years ago
• arnederoeck / NanoSatellite
  Dynamic time warping of Oxford Nanopore squiggle data to characterize tandem repeats.
  ☆32Updated 5 years ago
• shingocat / lrscaf
  TGS scaffolding
  ☆46Updated 3 years ago
• AppliedBioinformatics / runBNG
  An easy way to run BioNano genomic analysis
  ☆27Updated 4 years ago
• vgteam / sv-genotyping-paper
  ☆30Updated 5 years ago
• lh3 / calN50
  Compute N50/NG50 and auN/auNG
  ☆32Updated last year
• Xinglab / TideHunter
  TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
  ☆20Updated last year
• Parsoa / SVDSS
  Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)
  ☆43Updated last month
• benoukraflab / NanoVar
  Structural variant caller for low-depth long-read sequencing data
  ☆25Updated 6 months ago