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• PB-Assembly
  pb-assembly is a collection of PacBio software including the following applications and their dependencies:
  2 KB (269 words) - 20:11, 24 August 2022
• LINKS
  ...gh-quality draft genome assemblies with any long sequences (eg. ONT reads, PacBio reads, another draft genomes, etc)
  2 KB (274 words) - 16:16, 10 June 2022
• Ngmlr
  NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a f
  2 KB (279 words) - 16:24, 10 June 2022
• SequelQC
  SequelQC is a quality check program specifically for the PacBio Sequel platform that quickly processes raw sequence data from multiple SMRT
  2 KB (280 words) - 21:24, 6 December 2019
• Sniffles2
  ...ffles2 accurately detect SVs on germline, somatic and population-level for PacBio and Oxford Nanopore read data.
  2 KB (291 words) - 20:42, 12 August 2022
• C-wap
  ...based bioinformatics pipeline for the analysis of either long-read (ONT or PacBio) or short-read (Illumina) whole genome sequencing data of DNA extracted fro
  2 KB (281 words) - 13:16, 15 August 2022
• Trim isoseq polya
  It is primarily developed to process the "isoseq_flnc.fasta" file of PacBio Iso-Seq
  2 KB (298 words) - 15:04, 19 August 2022
• MITObim
  ...bler, MITObim supports in principle also data from the Iontorrent, 454 and PacBio sequencing platforms.
  3 KB (301 words) - 15:20, 22 April 2020
• Proovread
  proovread: large-scale high accuracy PacBio correction through iterative short read consensus. Hackl, T.; Hedrich, R.;
  2 KB (269 words) - 20:27, 12 August 2022
• Unicycler
  ...functions as a SPAdes-optimiser. It can also assembly long-read-only sets (PacBio or Nanopore) where it runs a miniasm+Racon pipeline. For the best possible
  2 KB (292 words) - 21:29, 6 December 2019
• Homopolish
  ...e polisher originally developed for Nanopore and subsequently extended for PacBio CLR. It generates a high-quality genome (>Q50) for virus, bacteria, and fun
  3 KB (298 words) - 15:54, 6 July 2022
• LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads, and it has two functionalities: sample qc and platform
  2 KB (286 words) - 14:52, 12 October 2021
• Hifiasm
  Hifiasm is a fast haplotype-resolved de novo assembler for PacBio Hifi reads. It can assemble a human genome in several hours and works with
  3 KB (303 words) - 22:23, 27 August 2020
• Wtdbg
  Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error
  3 KB (310 words) - 17:44, 22 August 2022
• Sniffles
  Sniffles is a structural variation caller using third generation sequencing (PacBio or Oxford Nanopore). It detects all types of SVs (10bp+) using evidence fro
  3 KB (305 words) - 00:03, 22 August 2022
• FLAIR
  ...sy reads. FLAIR has primarily been used for nanopore cDNA, native RNA, and PacBio sequencing reads.
  3 KB (305 words) - 18:34, 12 July 2023
• Pbmm2
  ...a SMRT C++ wrapper for minimap2's C API. Its purpose is to support native PacBio in- and output, provide sets of recommended parameters, generate sorted out
  3 KB (303 words) - 20:08, 31 May 2022
• IsONclust
  isONclust is a tool for clustering either PacBio Iso-Seq reads, or Oxford Nanopore reads into clusters, where each cluster r
  3 KB (307 words) - 13:24, 19 October 2020
• MIRA
  ...quencing data. Can use Sanger, 454, Solexa (Illumina) and IonTorrent data. PacBio: CCS and ecCLR data usable, CLR not yet. Please visit [http://sourceforge.n
  2 KB (313 words) - 20:42, 18 August 2022
• HASLR
  ...long reads generated by Third Generation Sequencing technologies (such as PacBio or Oxford Nanopore) together with Next Generation Sequencing reads (such as
  3 KB (315 words) - 19:53, 17 August 2020

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