Bowtie 2

swMATH29190MaRDI QIDQ40904FDOQ40904

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Source code repository: https://github.com/BenLangmead/bowtie2

Cited In (23)

• Global and local sequence alignment with a bounded number of gaps
• Error correction in methylation profiling from NGS bisulfite protocols
• Comparative assessment of alignment algorithms for NGS data: features, considerations, implementations, and future
• String-matching and alignment algorithms for finding motifs in NGS data
• An efficient approach to merging paired-end reads and incorporation of uncertainties
• Algorithmic Framework for Approximate Matching Under Bounded Edits with Applications to Sequence Analysis
• Approximate search of short patterns with high error rates using the \(01^\ast 0\) lossless seeds
• Long Reads Enable Accurate Estimates of Complexity of Metagenomes
• Modeling association in microbial communities with clique loglinear models
• Graph algorithms for DNA sequencing -- origins, current models and the future
• Refining the \(r\)-index
• Accurate Reconstruction of Microbial Strains from Metagenomic Sequencing Using Representative Reference Genomes
• Fast and optimal sequence-to-graph alignment guided by seeds
• A resource-frugal probabilistic dictionary and applications in bioinformatics
• FM-index of alignment with gaps
• Computational genomics with R. With the assistance of Verdan Franke, Bora Uyar and Jonathan Ronen
• A novel specialized single-linkage clustering algorithm for taxonomically ordered data
• \textsc{AStarix}: fast and optimal sequence-to-graph alignment
• G-MAPSEQ -- a new method for mapping reads to a reference genome
• CUSHAW suite: parallel and efficient algorithms for NGS read alignment
• Yanagi: transcript segment library construction for RNA-seq quantification
• Vaquita: fast and accurate identification of structural variation using combined evidence
• ThIEF: finding genome-wide trajectories of epigenetics marks

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