Alternatives and similar repositories for NanoSim

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

• marbl / Winnowmap
  Long read / genome alignment software
  ☆291Updated 8 months ago
• rrwick / Badread
  a long read simulator that can imitate many types of read problems
  ☆228Updated 11 months ago
• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆281Updated 9 months ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆265Updated 2 weeks ago
• schatzlab / genomescope
  Fast genome analysis from unassembled short reads
  ☆292Updated last year
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆287Updated this week
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆396Updated 2 months ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆270Updated 5 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆261Updated 2 years ago
• tjiangHIT / cuteSV
  Long read based human genomic structural variation detection with cuteSV
  ☆268Updated last month
• wdecoster / chopper
  ☆200Updated 2 months ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆313Updated 3 months ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆203Updated last week
• KamilSJaron / smudgeplot
  Inference of ploidy and heterozygosity structure using whole genome sequencing data
  ☆273Updated 2 weeks ago
• chanzuckerberg / shasta
  [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads
  ☆274Updated 2 years ago
• lbcb-sci / herro
  HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of …
  ☆222Updated last month
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆362Updated last week
• philres / ngmlr
  NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…
  ☆304Updated last year
• whatshap / whatshap
  Read-based phasing of genomic variants, also called haplotype assembly
  ☆375Updated last month
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆207Updated 2 years ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆325Updated last year
• pangenome / pggb
  the pangenome graph builder
  ☆439Updated last month
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆227Updated 6 months ago
• marbl / merqury
  k-mer based assembly evaluation
  ☆317Updated last year
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆201Updated 4 months ago
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆225Updated last month
• gtonkinhill / panaroo
  An updated pipeline for pangenome investigation
  ☆306Updated 4 months ago
• nanoporetech / tombo
  Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.
  ☆233Updated 2 years ago
• alekseyzimin / masurca
  ☆256Updated 3 weeks ago
• nanoporetech / remora
  Methylation/modified base calling separated from basecalling.
  ☆177Updated 10 months ago