Outlier detection in BLAST hits

DOI10.4230/LIPICS.WABI.2017.23MaRDI QIDQ5111831zbMATH OpenFDO

Authors Nidhi Shah, Stephen F. Altschul, Mihai Pop

Publication date 27 May 2020

Full work available at URL https://doi.org/10.4230/LIPICS.WABI.2017.23

zbMATH Keywords

metagenomicsoutlier detectionsequence alignmenttaxonomy classification

Mathematics Subject Classification ID

Computational methods for problems pertaining to biology (92-08) Taxonomy, cladistics, statistics in mathematical biology (92B10) Protein sequences, DNA sequences (92D20)

Recommendations

• Singling out ill-fit items in a classification. Application to the taxonomy of Enterobacteriaceae
• Lightweight metagenomic classification via eBWT
• Predicting the metagenomics content with multiple CART trees
• Clustering Near-Identical Sequences for Fast Homology Search
• Comparative Genomics

Cites work

• An invariant form for the prior probability in estimation problems
• Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes.
• Minimal Mutation Trees of Sequences

Cited in

(3)

• Detecting outlier samples in microarray data
• Singling out ill-fit items in a classification. Application to the taxonomy of Enterobacteriaceae
• CONSULT-II: taxonomic identification using locality sensitive hashing

Describes a project that uses

Uses Software

• V-Xtractor
• iTOL
• MEGAN
• TIPP
• pplacer

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