BenLangmead

Associate Professor of Computer Science at Johns Hopkins University

Johns Hopkins UniversityBaltimore, MD

Pinned Repositories

ads1-notebooks
Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing
365 55 3365
ads1-slides
Slides for Algorithms for DNA Sequencing Coursera class
312 35 1220
aws-indexes
Catalog of genomic indexes freely available from public clouds
Language:Python56 5 314
bowtie
An ultrafast memory-efficient short read aligner
Language:C++260 30 11177
bowtie2
A fast and sensitive gapped read aligner
Language:C++664 31 431158
c-cpp-notes
Lecture notes and example code for teaching C & C++
Language:Python234 14 1028
comp-genomics-class
Code and examples for JHU Computational Genomics class
Language:Jupyter Notebook289 21 6112
crossbow
Variant calling from sequence reads using cloud computing
Language:Perl38 6 613
langmead-lab
Publicly-visible Langmead Lab resources
60 5 017
qtip
Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
Language:C++24 7 87

BenLangmead's Repositories

BenLangmead/bowtie2
A fast and sensitive gapped read aligner
Language:C++664 31 431158
BenLangmead/ads1-notebooks
Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing
365 55 3365
BenLangmead/comp-genomics-class
Code and examples for JHU Computational Genomics class
Language:Jupyter Notebook289 21 6112
BenLangmead/bowtie
An ultrafast memory-efficient short read aligner
Language:C++260 30 11177
BenLangmead/c-cpp-notes
Lecture notes and example code for teaching C & C++
Language:Python234 14 1028
BenLangmead/aws-indexes
Catalog of genomic indexes freely available from public clouds
Language:Python56 5 314
BenLangmead/qtip
Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
Language:C++24 7 87
BenLangmead/myrna
Cloud-scale differential expression for RNA-seq
Language:Perl15 11 111
BenLangmead/bowtie-majref
Scripts related to building major-allele references for Bowtie and Bowtie 2
Language:Shell12 5 31
BenLangmead/percy
Scripts for starting permanent, lightweight EC2 instances
Language:Python2 2 01
BenLangmead/bonsai
Bonsai: Ultrafast, flexible taxonomic analysis and classification
Language:C++1 2 0
BenLangmead/cgsi18
Scripts for downloading and querying raw Snaptron data
Language:HTML1 2 01
BenLangmead/jupyter-all
Jupyter environment with various language kernels already installed
Language:Dockerfile1 2 0
BenLangmead/kraken2
The second version of the Kraken taxonomic sequence classification system
Language:C++1 2 0
BenLangmead/langmead-lab-web
Langmead lab website
Language:CSS1 2 0
BenLangmead/moni
MONI: A Pangenomic Index for Finding MEMs
Language:C++1 1 0
BenLangmead/open-data-registry
A registry of publicly available datasets on AWS
Language:Python1 3 0
BenLangmead/recount-docker
Dockerization of recount and its R/Bioconductor dependencies
Language:R1 3 0
BenLangmead/semesterly
Your Semester Made Easier | Course Scheduling & Social Tools for Students
Language:HTML1 2 0
BenLangmead/bt2-cloudbench
Scripts for running Bowtie 2 tests on many different cloud instances
Language:Python3 0
BenLangmead/clion-experiments
Experimenting with CLion for teaching
Language:Dockerfile2 0
BenLangmead/dashing
Fast and accurate genomic distances using HyperLogLog
Language:C++2 0
BenLangmead/dev-dandD
Tool to estimate deltas for sequence sets and answer questions about relative contribution
Language:HTML2 0
BenLangmead/digest
Language:C++1 0
BenLangmead/digest-experiments
Language:Shell2 0
BenLangmead/genome_info_curve
Genome Utility
Language:Python2 0
BenLangmead/inorder-site
Language:SCSS
BenLangmead/kraken2-experiment-code
Code backing the results of the Kraken 2 paper
Language:Shell2 0
BenLangmead/pfbwt-f
Prefix Free Parsing Algorthim for building BWTs for genomic data
Language:C++2 0
BenLangmead/spumoni
Pan-Genomic Matching Statistics
Language:C++2 01