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• PacBio
  |{{#vardefine:app|pacbio}} SMRT® Analysis is PacBio's bioinformatics software suite for analyzing single molecule, real-time DN
  2 KB (250 words) - 20:10, 24 August 2022

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• PacBio
  |{{#vardefine:app|pacbio}} SMRT® Analysis is PacBio's bioinformatics software suite for analyzing single molecule, real-time DN
  2 KB (250 words) - 20:10, 24 August 2022
• Pbipa
  ...ware for HiFi genome assembly. IPA was designed to utilize the accuracy of PacBio HiFi reads to produce high-quality phased genome assemblies.
  2 KB (268 words) - 21:58, 27 April 2022
• Pbpigeon
  PacBio Pigeon is a PacBio Transcript Toolkit that contains tools to classify and filter full-length t
  2 KB (275 words) - 22:37, 21 January 2024
• SMARTdenovo
  ...ences, though a platform dependent consensus polish tools (e.g. Quiver for PacBio or Nanopolish for ONT) are still required for higher accuracy.
  2 KB (296 words) - 21:24, 6 December 2019
• IsoSeq3
  ...a new clustering technique, allows to process the ever-increasing yield of PacBio machines with similar performance to IsoSeq versions 1 and 2.
  3 KB (295 words) - 20:10, 24 August 2022
• Lima
  ...rcode demultiplexer, is the standard tool to identify barcode sequences in PacBio single-molecule sequencing data. Starting in SMRT Link v5.1.0, it is the to
  3 KB (299 words) - 19:57, 15 August 2022
• Inspector
  ...long read data. The input includes a contig file, long reads (PacBio CLR, PacBio HiFi, Oxford Nanopore, or mixed platform), and a reference genome (optional
  3 KB (319 words) - 18:50, 15 August 2022
• Minimap
  ...U cores, minimap can map 1.6Gbp PacBio reads to human in 2.5 minutes, 1Gbp PacBio E. coli reads to pre-indexed 9.6Gbp bacterial genomes in 3 minutes, to pre-
  3 KB (385 words) - 19:07, 10 June 2022
• DEXTRACTOR
  ...mbly and reconstruction from the source .bax.h5 HDF5 files produced by the PacBio original uncompressed file. In this way, users of a PacBio can keep the data needed
  3 KB (441 words) - 19:20, 10 June 2022
• Pbsmrtpipe
  Workflow Engine for working with PacBio data.
  2 KB (239 words) - 18:05, 15 August 2022
• RepeatAnalysis
  PacBio tools: RepeatAnalysis, AmpFreeTools, Lima
  2 KB (238 words) - 14:34, 26 August 2020
• Pbcore
  python package for interacting with PacBio data
  2 KB (244 words) - 20:16, 12 August 2022
• Pbalign
  pbalign maps PacBio reads to reference sequences.
  2 KB (243 words) - 20:15, 12 August 2022
• Bax2bam
  bax2bam converts the legacy PacBio basecall format (bax.h5) into the BAM basecall format
  2 KB (253 words) - 14:05, 10 December 2019
• Asset
  Asset can use sequencing data from four platforms (Pacbio, 10X, Bionano, HiC) to accumulate the support evidence for a de novo assemb
  2 KB (253 words) - 20:07, 15 June 2023
• GenomicConsensus
  ...er tool, which allows you to apply the Quiver or Arrow algorithm to mapped PacBio reads to get consensus and variant calls.
  2 KB (256 words) - 15:05, 10 June 2022
• LoRDEC
  Program for correcting sequencing errors in long reads (e.g., PacBio, Oxford Nanopore) using highly accurate short reads (e.g., Illumina).
  2 KB (258 words) - 13:38, 22 April 2021
• OrganellePBA
  OrganelleRef_PBA is a script to perform a de-novo PacBio assemblies of any organelle (chloroplast or mitochondrial genomes) using se
  2 KB (258 words) - 21:22, 6 December 2019
• Trgt
  TRGT is a tool for targeted genotyping of tandem repeats from PacBio HiFi data. In addition to the basic size genotyping, TRGT profiles sequence
  2 KB (273 words) - 14:45, 28 July 2023
• Trvz
  ...the repeats. TRGT is a tool for targeted genotyping of tandem repeats from PacBio HiFi data. In addition to the basic size genotyping, TRGT profiles sequence
  2 KB (273 words) - 14:46, 28 July 2023

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