Package: ngmlr (0.2.7+git20210816.a2a31fb+dfsg-4~0exp0simde) [debports]

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Experimental package

Warning: This package is from the experimental distribution. That means it is likely unstable or buggy, and it may even cause data loss. Please be sure to consult the changelog and other possible documentation before using it.

CoNvex Gap-cost alignMents for Long Reads

Ngmlr is a long-read mapper designed to sensitively align PacBilo or Oxford Nanopore to (large) reference genomes. It was designed to quickly and correctly align the reads, including those spanning (complex) structural variations. Ngmlr uses an SV aware k-mer search to find approximate mapping locations for a read and then a banded Smith- Waterman alignment algorithm to compute the final alignment. Ngmlr uses a convex gap cost model that penalizes gap extensions for longer gaps less than for shorter ones to compute precise alignments.

Other Packages Related to ngmlr

• dep: libc6 (>= 2.36)

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

• dep: libgcc-s1 (>= 4.2)

  GCC support library

• dep: libssw0 (>= 1.1)

  fast SIMD parallelized implementation of the Smith-Waterman algorithm

• dep: libstdc++6 (>= 11)

  GNU Standard C++ Library v3

• dep: zlib1g (>= 1:1.1.4)

  compression library - runtime

Download ngmlr

Download for all available architectures

Architecture	Package Size	Installed Size	Files
sh4 (unofficial port)	696.3 kB	1,173.0 kB	[list of files]