title: Windshield splatter analysis with the Galaxy metagenomic pipeline.
abstract: How many species inhabit our immediate surroundings? A straightforward collection technique suitable for answering this question is known to anyone who has ever driven a car at highway speeds. The windshield of a moving vehicle is subjected to numerous insect strikes and can be used as a collection device for representative sampling. Unfortunately the analysis of biological material collected in that manner, as with most metagenomic studies, proves to be rather demanding due to the large number of required tools and considerable computational infrastructure. In this study, we use organic matter collected by a moving vehicle to design and test a comprehensive pipeline for phylogenetic profiling of metagenomic samples that includes all steps from processing and quality control of data generated by next-generation sequencing technologies to statistical analyses and data visualization. To the best of our knowledge, this is also the first publication that features a live online supplement providing access to exact analyses and workflows used in the article.
authors.affiliation: http://galaxyproject.org. spond@ucsd.edu
authors.forename: Sergei
authors.initials: S
authors.lastname: Kosakovsky Pond
authors.forename: Samir
authors.initials: S
authors.lastname: Wadhawan
authors.forename: Francesca
authors.initials: F
authors.lastname: Chiaromonte
authors.forename: Guruprasad
authors.initials: G
authors.lastname: Ananda
authors.forename: Wen-Yu
authors.initials: WY
authors.lastname: Chung
authors.forename: James
authors.initials: J
authors.lastname: Taylor
authors.forename: Anton
authors.initials: A
authors.lastname: Nekrutenko
mesh_terms: D000465:Algorithms; D000818:Animals; D001336:Automobiles; D001419:Bacteria / Q000145:classification / Q000235:genetics; D019295:Computational Biology / Q000379:methods*; D004247:DNA / Q000737:chemistry / Q000302:isolation & purification*; D004269:DNA, Bacterial / Q000737:chemistry / Q000302:isolation & purification; D030561:Databases, Nucleic Acid; D006801:Humans; D056186:Metagenomics / Q000379:methods*; D010802:Phylogeny; D015203:Reproducibility of Results; D017422:Sequence Analysis, DNA / Q000379:methods; D012984:Software
chemical_list: D004269:DNA, Bacterial; D004247:DNA