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List of works by Ben Langmead

A tandem simulation framework for predicting mapping quality

scientific article published on 10 August 2017

ASCOT identifies key regulators of neuronal subtype-specific splicing

scientific article published on 09 January 2020

Aligning Short Sequencing Reads with Bowtie ⬇️

scientific article published on December 1, 2010

Analyzing whole genome bisulfite sequencing data from highly divergent genotypes

Arioc: high-throughput read alignment with GPU-accelerated exploration of the seed-and-extend search space

scientific article published in 2015

Ballgown bridges the gap between transcriptome assembly and expression analysis

scientific article published on March 2015

Boiler: lossy compression of RNA-seq alignments using coverage vectors

scientific article published on 13 June 2016

Cloud computing and the DNA data race

scientific article

Cloud computing for genomic data analysis and collaboration

scientific article published on 30 January 2018

Cloud-scale RNA-sequencing differential expression analysis with Myrna

scientific article

Dashing: fast and accurate genomic distances with HyperLogLog

scientific article published on 04 December 2019

Efficient taxa identification using a pangenome index

scientific article published in 2023

FORGe: prioritizing variants for graph genomes

Fast gapped-read alignment with Bowtie 2 ⬇️

scientific article (publication date: 4 March 2012)

Flexible expressed region analysis for RNA-seq with derfinder

scientific article published on 29 September 2016

Flexible expressed region analysis for RNA-seq with derfinder

scholarly article published 19 February 2015

Genotyping in the Cloud with Crossbow ⬇️

scientific article published on September 1, 2012

HISAT: a fast spliced aligner with low memory requirements

scientific article

Human splicing diversity across the Sequence Read Archive

scientific article published on 29 January 2016

Human splicing diversity and the extent of unannotated splice junctions across human RNA-seq samples on the Sequence Read Archive

scientific article

Improved metagenomic analysis with Kraken 2

scientific article published on 28 November 2019

Large-scale hypomethylated blocks associated with Epstein-Barr virus-induced B-cell immortalization

scientific article published on 25 September 2013

Polyester: simulating RNA-seq datasets with differential transcript expression

scientific article published on 28 April 2015

Rail-RNA: Scalable analysis of RNA-seq splicing and coverage

scientific article published on 7 May 2015

Rail-RNA: scalable analysis of RNA-seq splicing and coverage

scientific article

Rail-dbGaP: analyzing dbGaP-protected data in the cloud with Amazon Elastic MapReduce

scientific article

Rail-dbGaP: analyzing dbGaP-protected data in the cloud with Amazon Elastic MapReduce

scientific article published on 24 December 2015

ReCount: a multi-experiment resource of analysis-ready RNA-seq gene count datasets

scientific article

Recounting the FANTOM CAGEAssociated Transcriptome

scientific article published on 20 February 2020

Reference flow: reducing reference bias using multiple population genomes

scientific article published on 04 January 2021

Reversible switching between epigenetic states in honeybee behavioral subcastes

scientific article

Searching for SNPs with cloud computing

scientific article

Snaptron: querying splicing patterns across tens of thousands of RNA-seq samples

scientific article published on September 2017

The DNA Data Deluge: Fast, efficient genome sequencing machines are spewing out more data than geneticists can analyze

scientific article

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

scientific article

Widespread splicing of repetitive element loci into coding regions of gene transcripts

scientific article

recount3: summaries and queries for large-scale RNA-seq expression and splicing

scientific article published on 29 November 2021

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