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Package: pbhoney (15.8.24+dfsg-4)

genomic structural variation discovery

PBHoney is an implementation of two variant-identification approaches designed to exploit the high mappability of long reads (i.e., greater than 10,000 bp). PBHoney considers both intra-read discordance and soft-clipped tails of long reads to identify structural variants.

PBHoney is part of the PBSuite.

Other Packages Related to pbhoney

  • depends
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  • dep: blasr (>= 5.3)
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  • dep: python3
    interactive high-level object-oriented language (default python3 version)
  • dep: python3-h5py
    general-purpose Python interface to hdf5 (Python 3)
  • dep: python3-intervaltree-bio
    Interval tree convenience classes for genomic data -- Python 3 library
  • dep: python3-networkx
    tool to create, manipulate and study complex networks (Python3)
  • dep: python3-numpy
    Fast array facility to the Python 3 language
  • dep: python3-pbbanana (= 15.8.24+dfsg-4)
    additional utilities for the pbsuite
  • dep: python3-pbsuite-utils (= 15.8.24+dfsg-4)
    software for Pacific Biosciences sequencing data -- Python utilities
  • dep: python3-pysam (>= 0.8.0)
    interface for the SAM/BAM sequence alignment and mapping format (Python 3)
  • dep: samtools
    processing sequence alignments in SAM, BAM and CRAM formats
  • rec: pbdagcon
    sequence consensus using directed acyclic graphs

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