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[ Source: bifrost  ]

Package: bifrost (1.3.1-1)

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bifrost

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parallel construction, indexing and querying of de Bruijn graphs

Bifrost is a command-line tool for sequencing that features a broad range of functions, such as indexing, editing, and querying the graph, and includes a graph coloring method that maps each k-mer of the graph to the genomes it occurs in. 

 * Build, index, color and query the compacted de Bruijn graph
 * No need to build the uncompacted de Bruijn graph
 * Reads or assembled genomes as input
 * Output graph in GFA (can be visualized with Bandage), FASTA or binary
 * Graph cleaning: short tip clipping, etc.
 * Multi-threaded
 * No parameters to estimate with other tools
 * Exact or approximate k-mer search of queries

Other Packages Related to bifrost

  • depends
  • recommends
  • suggests
  • dep: libbifrost0 (>= 1.3.1)
    library for parallel construction, indexing and querying of de Bruijn graphs
  • dep: libc6 (>= 2.38)
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
  • dep: libgcc-s1 (>= 3.3.1)
    GCC support library
  • dep: libstdc++6 (>= 13.1)
    GNU Standard C++ Library v3
  • dep: zlib1g (>= 1:1.1.4)
    compression library - runtime

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Architecture Package Size Installed Size Files
amd64 507.0 kB1080 kB [list of files]