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pwalign

Bioc current

Perform pairwise sequence alignments

v1.8.0 · software · Artistic-2.0
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Release Lineage

Entered 3.19 · May 1, 2024

Current · Requires R 4.6

1.0 In 5 of 49 releases 3.23

Description

The two main functions in the package are pairwiseAlignment() and stringDist(). The former solves (Needleman-Wunsch) global alignment, (Smith-Waterman) local alignment, and (ends-free) overlap alignment problems. The latter computes the Levenshtein edit distance or pairwise alignment score matrix for a set of strings.

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Topics

Software › WorkflowStep › Alignment
Software › BiologicalQuestion › SequenceMatching
Software › Technology › Sequencing
Software › ResearchField › Genetics

Depended on by (54)

Bioconductor (42)

amplican BiocGenerics Biostrings ChIPpeakAnno chromVAR CNEr crisprShiny DominoEffect enhancerHomologSearch ggseqalign GUIDEseq idpr IMMAN IsoformSwitchAnalyzeR MethTargetedNGS methylscaper msa MSA2dist mutscan openPrimeR QSutils R453Plus1Toolbox RSVSim sangeranalyseR sangerseqR scanMiR scifer ShortRead SpliceImpactR SPLINTER +12 more

CRAN (12)

CleanBSequences AbSolution AntibodyForests BIGr DiPALM PACVr dowser longreadvqs ogrdbstats revert geneviewer seqtrie

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