Пакунок: smalt (0.7.6-8)

[ Source: smalt  ]

Sequence Mapping and Alignment Tool

SMALT efficiently aligns DNA sequencing reads with a reference genome. Reads from a wide range of sequencing platforms, for example Illumina, Roche-454, Ion Torrent, PacBio or ABI-Sanger, can be processed including paired reads.

The software employs a perfect hash index of short words (< 20 nucleotides long), sampled at equidistant steps along the genomic reference sequences.

For each read, potentially matching segments in the reference are identified from seed matches in the index and subsequently aligned with the read using a banded Smith-Waterman algorithm.

The best gapped alignments of each read is reported including a score for the reliability of the best mapping. The user can adjust the trade-off between sensitivity and speed by tuning the length and spacing of the hashed words.

A mode for the detection of split (chimeric) reads is provided. Multi-threaded program execution is supported.

Інші пакунки пов'язані з smalt

• dep: libbambamc0

  Runtime library for reading and writing BAM (genome alignment) files

• dep: libc6 (>= 2.14) [amd64]

  Бібліотека GNU C: спільні бібліотеки
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.17) [arm64]

  dep: libc6 (>= 2.7) [armhf]

• dep: zlib1g (>= 1:1.2.0.2)

  Бібліотека стискання даних (виконавчий модуль)

Завантажити smalt

Завантаження для всіх доступних архітектур

Архітектура	Розмір пакунка	Розмір після встановлення	Файли
amd64	110.4 kB	297.0 kB	[список файлів]
arm64	101.3 kB	281.0 kB	[список файлів]
armhf	94.7 kB	192.0 kB	[список файлів]