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 4 years ago
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 3 years ago
• Maggi-Chen / FusionSeeker
  A gene fusion caller for long-read transcriptome sequencing data.
  ☆18Updated 10 months ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 3 years ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆41Updated last year
• Psy-Fer / blue-crab
  crab go snap snap
  ☆37Updated last month
• wen-biao / OM-HiC-scaffolding
  Workflows for correcting and scaffolding long-read (PacBio, nanopore) genome assemblies using optical mapping and/or Dovetail Hi-C data
  ☆20Updated 4 years ago
• smehringer / SViper
  Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.
  ☆32Updated 2 years ago
• novoalab / modPhred
  modPhred is a pipeline for detection of DNA/RNA modifications from raw ONT data
  ☆16Updated 10 months ago
• Xinglab / TideHunter
  TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
  ☆20Updated 9 months ago
• novoalab / m6ABasecaller
  An m6A-aware basecalling model to detect m6A modifications at single nucleotide resolution in individual reads (Cruciani, Delgado-Tejedo…
  ☆15Updated last month
• 1kg-ont-vienna / sv-analysis
  SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel
  ☆25Updated this week
• llecompte / SVJedi
  SV genotyping with long reads
  ☆40Updated last year
• hanyue36 / nanoplexer
  Tool for demultiplexing Nanopore barcode sequence data
  ☆21Updated 3 years ago
• jts / smrest
  Tumour-only somatic mutation calling using long reads
  ☆26Updated 4 months ago
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆21Updated last month
• benedictpaten / marginPhase
  ☆35Updated 5 years ago
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆26Updated 3 years ago
• a-slide / pycoMeth
  DNA methylation analysis downstream to Nanopolish for Oxford Nanopore DNA sequencing datasets
  ☆34Updated 4 years ago
• vgteam / sv-genotyping-paper
  ☆30Updated 5 years ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆27Updated 3 years ago
• mcfrith / tandem-genotypes
  ☆48Updated 9 months ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆26Updated last year
• Kingsford-Group / rnaseqtools
  toolkit to process gtf files
  ☆17Updated 3 years ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 3 months ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• UCSC-nanopore-cgl / margin
  ☆30Updated 2 years ago
• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated last year
• AppliedBioinformatics / runBNG
  An easy way to run BioNano genomic analysis
  ☆27Updated 3 years ago