ARK: Aggregation of Reads by K-Means for Estimation of Bacterial Community Composition

SEK: sparsity exploiting k-mer-based estimation of bacterial community composition

(2014) S. Chatterjee et al.   BIOINFORMATICS

Taxator-tk: precise taxonomic assignment of metagenomes by fast approximation of evolutionary neighborhoods

(2014) J. Dröge et al.   BIOINFORMATICS

WGSQuikr: Fast Whole-Genome Shotgun Metagenomic Classification

(2014) David Koslicki et al.   PLoS One

Quikr: a method for rapid reconstruction of bacterial communities via compressive sensing

(2013) David Koslicki et al.   BIOINFORMATICS

Fusion of Algorithms for Compressed Sensing

(2013) Sooraj K. Ambat et al.   IEEE TRANSACTIONS ON SIGNAL PROCESSING

Species Identification and Profiling of Complex Microbial Communities Using Shotgun Illumina Sequencing of 16S rRNA Amplicon Sequences

(2013) Swee Hoe Ong et al.   PLoS One

Bayesian estimation of bacterial community composition from 454 sequencing data

(2012) Lu Cheng et al.   NUCLEIC ACIDS RESEARCH

Grinder: a versatile amplicon and shotgun sequence simulator

(2012) Florent E. Angly et al.   NUCLEIC ACIDS RESEARCH

Mixture models for analysis of the taxonomic composition of metagenomes

(2011) Peter Meinicke et al.   BIOINFORMATICS

Analysis of 16S rRNA environmental sequences using MEGAN

(2011) Suparna Mitra et al.   BMC GENOMICS

ESPRIT-Tree: hierarchical clustering analysis of millions of 16S rRNA pyrosequences in quasilinear computational time

(2011) Yunpeng Cai et al.   NUCLEIC ACIDS RESEARCH

NBC: the Naive Bayes Classification tool webserver for taxonomic classification of metagenomic reads

(2010) G. L. Rosen et al.   BIOINFORMATICS

Characteristics of 454 pyrosequencing data--enabling realistic simulation with flowsim

(2010) S. Balzer et al.   BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions

(2010) Marcus J. Claesson et al.   NUCLEIC ACIDS RESEARCH

Optimum switched split vector quantization of LSF parameters

(2008) Saikat Chatterjee et al.   SIGNAL PROCESSING