BWA

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Source code repository: https://github.com/lh3/bwa




Related Items (51)

Algorithmic Framework for Approximate Matching Under Bounded Edits with Applications to Sequence AnalysisIndeterminate string factorizations and degenerate text transformationsAStarix: Fast and Optimal Sequence-to-Graph AlignmentApproximate string matching using a bidirectional indexApproximate search of short patterns with high error rates using the \(01^\ast 0\) lossless seedsAnalytic combinatorics for computing seeding probabilitiesr-indexing the eBWTFast and optimal sequence-to-graph alignment guided by seedsCLMB: deep contrastive learning for robust metagenomic binningOn statistical modeling of sequencing noise in high depth data to assess tumor evolutionCompressed directed acyclic word graph with application in local alignmentCoverage theories for metagenomic DNA sequencing based on a generalization of Stevens' theoremWheeler graphs: a framework for BWT-based data structuresMulti-pattern matching with bidirectional indexesInstance Guaranteed Ratio on Greedy Heuristic for Genome ScaffoldingAn algorithm for mapping short reads to a dynamically changing genomic sequenceApproximate all-pairs suffix/prefix overlapsUnnamed ItemA survey of string orderings and their application to the Burrows-Wheeler transformFM-index of alignment with gapsA novel specialized single-linkage clustering algorithm for taxonomically ordered dataExtending alignments with \(k\)-mismatches and \(\ell\)-gapsAverage-case linear-time similar substring searching by the \(q\)-gram distanceComputing the Burrows-Wheeler transform of a string and its reverse in parallelWhen a dollar makes a BWTSpliceTAPyR — An Efficient Method for Transcriptome AlignmentQuantifying alternative splicing from paired-end RNA-sequencing dataDesigning Efficient Spaced Seeds for SOLiD Read MappingApplying the positional Burrows-Wheeler transform to all-pairs Hamming distanceFull-Text Indexes for High-Throughput SequencingDe Novo NGS Data CompressionDNA-Seq Error Correction Based on Substring IndicesComparative Assessment of Alignment Algorithms for NGS Data: Features, Considerations, Implementations, and FutureCUSHAW Suite: Parallel and Efficient Algorithms for NGS Read AlignmentString-Matching and Alignment Algorithms for Finding Motifs in NGS DataOn the string matching with \(k\) mismatchesA space-efficient alphabet-independent Four-Russians' lookup table and a multithreaded Four-Russians' edit distance algorithmVariance in estimated pairwise genetic distance under high versus low coverage sequencing: the contribution of linkage disequilibriumA Bayesian nonparametric model for inferring subclonal populations from structured DNA sequencing dataComputing the multi-string BWT and LCP array in external memoryA randomized numerical aligner (rNA)A resource-frugal probabilistic dictionary and applications in bioinformaticsExome sequencing identifies predisposing and fusion gene in ganglioneuroma, ganglioneuroblastoma and neuroblastomaRefining the \(r\)-indexThe alternating BWT: an algorithmic perspectiveA Bayesian feature allocation model for tumor heterogeneityWheeler languagesTreeClone: reconstruction of tumor subclone phylogeny based on mutation pairs using next generation sequencing dataGlobal and local sequence alignment with a bounded number of gapsComputing the Burrows-Wheeler transform in place and in small spaceSpace efficient merging of de Bruijn graphs and Wheeler graphs


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