Alternatives and similar repositories for NanoSim

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

• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆283Updated 11 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆270Updated 2 years ago
• tjiangHIT / cuteSV
  Long read based human genomic structural variation detection with cuteSV
  ☆273Updated last week
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆272Updated 3 weeks ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆321Updated 6 months ago
• 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…
  ☆306Updated last year
• marbl / merqury
  k-mer based assembly evaluation
  ☆327Updated last year
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆277Updated 8 months ago
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆366Updated 3 weeks ago
• schatzlab / genomescope
  Fast genome analysis from unassembled short reads
  ☆297Updated last year
• nanoporetech / megalodon
  Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by a…
  ☆204Updated 2 years ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆209Updated 2 years ago
• nanoporetech / tombo
  Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.
  ☆235Updated 2 years ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆235Updated 9 months ago
• whatshap / whatshap
  Read-based phasing of genomic variants, also called haplotype assembly
  ☆383Updated 3 months ago
• marbl / Winnowmap
  Long read / genome alignment software
  ☆300Updated 11 months ago
• chanzuckerberg / shasta
  [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads
  ☆273Updated 2 years ago
• rrwick / Badread
  a long read simulator that can imitate many types of read problems
  ☆243Updated last year
• wdecoster / chopper
  ☆212Updated last week
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆304Updated 2 weeks ago
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆413Updated 5 months ago
• KamilSJaron / smudgeplot
  Inference of ploidy and heterozygosity structure using whole genome sequencing data
  ☆279Updated last month
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆220Updated 2 months ago
• sortmerna / sortmerna
  SortMeRNA: next-generation sequence filtering and alignment tool
  ☆277Updated last month
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆380Updated 2 weeks ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆211Updated 3 months 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 …
  ☆231Updated 3 weeks ago
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆227Updated 3 months ago
• kishwarshafin / pepper
  PEPPER-Margin-DeepVariant
  ☆252Updated last year
• lbcb-sci / racon
  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads
  ☆227Updated last year