Summary: Numerous metagenomics projects have produced tremendous amounts of
sequencing data. Aligning these sequences to reference genomes is an essential analysis in
metagenomics studies. Large-scale alignment data call for intuitive and efficient
visualization tool. However, current tools such as various genome browsers are highly
specialized to handle intraspecies mapping results. They are not suitable for alignment
data in metagenomics, which are often interspecies alignments. We have developed a web
browser-based desktop application for interactively visualizing alignment data of
metagenomic sequences. This viewer is easy to use on all computer systems with modern web
browsers and requires no software installation.
Availability:
http://weizhongli-lab.org/mgaviewer
Contact:
liwz@sdsc.edu
Industrial location theory has not emphasized environmental concerns, and research on industrial symbiosis has not emphasized workforce housing concerns. This article brings jobs, housing, and environmental considerations together in an agent-based model of industrial and household location. It shows that four classic outcomes emerge from the interplay of a relatively small number of explanatory factors: the isolated enterprise with commuters; the company town; the economic agglomeration; and the balanced city. Volume 19, Number 2 r What are the evolutionary pathways that settlements founded around industrial enterprises might follow? r Which factors explain commonly observed settlement patterns? r Do environmental factors play a role?
From Enterprises to SettlementsThis investigation of how industrial enterprises sometimes evolve into industrial cities draws on three analytical traditions, including urban modeling, industrial symbiosis (IS), and jobsto-housing comparisons.
Environmental Simplification in Urban ModelingThe classical traditions in location theory all employ a microeconomic logic. The land-use tradition originates with von Thünen (1966/1826) who argues that land uses in a preindustrial landscape follow a monocentric model that optimally locates dispersed agricultural production based on transport costs to a central market. Alonso (1964) updates this approach for the industrial city by determining the optimal distances of residential and commercial land uses from a central business district. Sasaki and Box (2003) replicate von Thünen's results in an agent-based model. The central-place tradition originating
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