Package: bifrost (1.3.5-2 and others)

[ Source: bifrost  ]

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

• dep: libbifrost0 (>= 1.3.1) [ia64]

  library for parallel construction, indexing and querying of de Bruijn graphs

  dep: libbifrost0 (>= 1.3.5) [not ia64]

• dep: libc6 (>= 2.38) [not alpha, ia64, loong64]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.42) [loong64]

• dep: libc6.1 (>= 2.37) [ia64]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6.1-udeb

  dep: libc6.1 (>= 2.38) [alpha]

• dep: libgcc-s1 (>= 3.0) [not alpha, ia64, riscv64, sparc64]

  GCC support library

  dep: libgcc-s1 (>= 3.4) [alpha, riscv64]

  dep: libgcc-s1 (>= 4.2) [ia64]

  dep: libgcc-s1 (>= 4.3) [sparc64]

• dep: libstdc++6 (>= 13.1)

  GNU Standard C++ Library v3

• dep: libunwind8 [ia64]

  library to determine the call-chain of a program - runtime

• dep: zlib1g (>= 1:1.1.4)

  compression library - runtime

Download bifrost

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	1.3.5-2	511.2 kB	1,369.0 kB	[list of files]
amd64	1.3.5-2	533.0 kB	1,310.0 kB	[list of files]
arm64	1.3.5-2	504.5 kB	1,238.0 kB	[list of files]
ia64 (unofficial port)	1.3.1-1	563.5 kB	1,966.0 kB	[list of files]
loong64	1.3.5-2	514.2 kB	1,237.0 kB	[list of files]
ppc64 (unofficial port)	1.3.5-2	545.9 kB	1,494.0 kB	[list of files]
ppc64el	1.3.5-2	548.9 kB	1,430.0 kB	[list of files]
riscv64	1.3.5-2	533.8 kB	1,014.0 kB	[list of files]
s390x	1.3.5-2	552.2 kB	1,382.0 kB	[list of files]
sparc64 (unofficial port)	1.3.5-2	501.6 kB	1,311.0 kB	[list of files]