smalt 0.7.6-7 (arm64 binary) in ubuntu disco
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.
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The software employs a perfect hash index of short words (< 20
nucleotides long), sampled at equidistant steps along the genomic
reference sequences.
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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.
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A mode for the detection of split (chimeric) reads is provided.
Multi-threaded program execution is supported.
Details
- Package version:
- 0.7.6-7
- Status:
- Superseded
- Component:
- universe
- Priority:
- Optional
Downloadable files
- smalt_0.7.6-7_arm64.deb (91.8 KiB)
Package relationships
- Depends on: