funbarRF: DNA barcode-based fungal species prediction using multiclass Random Forest supervised learning model

Unbiased probabilistic taxonomic classification for DNA barcoding

(2016) Panu Somervuo et al.   BIOINFORMATICS

Identification of species based on DNA barcode using k-mer feature vector and Random forest classifier

(2016) Prabina Kumar Meher et al.   GENE

Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences

(2016) Vinita Deshpande et al.   MYCOLOGIA

Prediction of donor splice sites using random forest with a new sequence encoding approach

(2016) Prabina Kumar Meher et al.   BioData Mining

Spaced seeds improvek-mer-based metagenomic classification

(2015) Karel Břinda et al.   BIOINFORMATICS

Effective Automated Feature Construction and Selection for Classification of Biological Sequences

(2014) Uday Kamath et al.   PLoS One

Supervised DNA Barcodes species classification: analysis, comparisons and results

(2014) Emanuel Weitschek et al.   BioData Mining

Towards a unified paradigm for sequence-based identification of fungi

(2013) Urmas Kõljalg et al.   MOLECULAR ECOLOGY

Two New Computational Methods for Universal DNA Barcoding: A Benchmark Using Barcode Sequences of Bacteria, Archaea, Animals, Fungi, and Land Plants

(2013) Akifumi S. Tanabe et al.   PLoS One

Community composition of root-associated fungi in aQuercus-dominated temperate forest: “codominance” of mycorrhizal and root-endophytic fungi

(2013) Hirokazu Toju et al.   Ecology and Evolution

Accuracy of protist diversity assessments: morphology compared with cloning and direct pyrosequencing of 18S rRNA genes and ITS regions using the conspicuous tintinnid ciliates as a case study

(2012) Charles Bachy et al.   ISME Journal

A New Method for Species Identification via Protein-Coding and Non-Coding DNA Barcodes by Combining Machine Learning with Bioinformatic Methods

(2012) Ai-bing Zhang et al.   PLoS One

DNA Barcoding of Recently Diverged Species: Relative Performance of Matching Methods

(2012) Robin van Velzen et al.   PLoS One

Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi

(2012) C. L. Schoch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Barcode of Life Data Portal: Bridging the Biodiversity Informatics Divide for DNA Barcoding

(2011) Indra Neil Sarkar et al.   PLoS One

Progress in molecular and morphological taxon discovery in Fungi and options for formal classification of environmental sequences

(2011) David S. Hibbett et al.   Fungal Biology Reviews

CD-HIT Suite: a web server for clustering and comparing biological sequences

(2010) Ying Huang et al.   BIOINFORMATICS

Multilocus species identification and fungal DNA barcoding: insights from blue stain fungal symbionts of the mountain pine beetle

(2010) AMANDA D. ROE et al.   Molecular Ecology Resources

Complete DNA barcode reference library for a country's butterfly fauna reveals high performance for temperate Europe

(2010) V. Dinca et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

DNA barcode analysis: a comparison of phylogenetic and statistical classification methods

(2009) Frederic Austerlitz et al.   BMC BIOINFORMATICS

Learning to classify species with barcodes

(2009) Paola Bertolazzi et al.   BMC BIOINFORMATICS

Progress towards DNA barcoding of fungi

(2009) KEITH A. SEIFERT   Molecular Ecology Resources

A DNA barcode for land plants

(2009) et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Speciation in fungi

(2008) Tatiana Giraud et al.   FUNGAL GENETICS AND BIOLOGY

BPSI2.0: a C/C++ interface program for species identification via DNA barcoding with a BP-neural network by calling the Matlab engine

(2008) A. B. ZHANG et al.   Molecular Ecology Resources