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

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

(2013) David Koslicki et al.   BIOINFORMATICS

High-resolution microbial community reconstruction by integrating short reads from multiple 16S rRNA regions

(2013) Amnon Amir et al.   NUCLEIC ACIDS RESEARCH

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

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

(2011) B. J. Haas et al.   GENOME RESEARCH

Backtracking-Based Matching Pursuit Method for Sparse Signal Reconstruction

(2011) Honglin Huang et al.   IEEE SIGNAL PROCESSING LETTERS

Projection-Based and Look-Ahead Strategies for Atom Selection

(2011) Saikat Chatterjee et al.   IEEE TRANSACTIONS ON SIGNAL PROCESSING

Bacterial Community Reconstruction Using Compressed Sensing

(2011) Amnon Amir et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

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

(2011) Yunpeng Cai et al.   NUCLEIC ACIDS RESEARCH

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

$\ell_{2}/\ell_{1}$-Optimization in Block-Sparse Compressed Sensing and Its Strong Thresholds

(2010) M. Stojnic   IEEE Journal of Selected Topics in Signal Processing

Metagenomics: Read Length Matters

(2008) K. E. Wommack et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

An Introduction To Compressive Sampling

(2008) E.J. Candes et al.   IEEE SIGNAL PROCESSING MAGAZINE