2,087 research outputs found
Radio Galaxy Zoo: Knowledge Transfer Using Rotationally Invariant Self-Organising Maps
With the advent of large scale surveys the manual analysis and classification
of individual radio source morphologies is rendered impossible as existing
approaches do not scale. The analysis of complex morphological features in the
spatial domain is a particularly important task. Here we discuss the challenges
of transferring crowdsourced labels obtained from the Radio Galaxy Zoo project
and introduce a proper transfer mechanism via quantile random forest
regression. By using parallelized rotation and flipping invariant Kohonen-maps,
image cubes of Radio Galaxy Zoo selected galaxies formed from the FIRST radio
continuum and WISE infrared all sky surveys are first projected down to a
two-dimensional embedding in an unsupervised way. This embedding can be seen as
a discretised space of shapes with the coordinates reflecting morphological
features as expressed by the automatically derived prototypes. We find that
these prototypes have reconstructed physically meaningful processes across two
channel images at radio and infrared wavelengths in an unsupervised manner. In
the second step, images are compared with those prototypes to create a
heat-map, which is the morphological fingerprint of each object and the basis
for transferring the user generated labels. These heat-maps have reduced the
feature space by a factor of 248 and are able to be used as the basis for
subsequent ML methods. Using an ensemble of decision trees we achieve upwards
of 85.7% and 80.7% accuracy when predicting the number of components and peaks
in an image, respectively, using these heat-maps. We also question the
currently used discrete classification schema and introduce a continuous scale
that better reflects the uncertainty in transition between two classes, caused
by sensitivity and resolution limits
Fast training of self organizing maps for the visual exploration of molecular compounds
Visual exploration of scientific data in life science
area is a growing research field due to the large amount of
available data. The Kohonen’s Self Organizing Map (SOM) is
a widely used tool for visualization of multidimensional data.
In this paper we present a fast learning algorithm for SOMs
that uses a simulated annealing method to adapt the learning
parameters. The algorithm has been adopted in a data analysis
framework for the generation of similarity maps. Such maps
provide an effective tool for the visual exploration of large and
multi-dimensional input spaces. The approach has been applied
to data generated during the High Throughput Screening
of molecular compounds; the generated maps allow a visual
exploration of molecules with similar topological properties.
The experimental analysis on real world data from the
National Cancer Institute shows the speed up of the proposed
SOM training process in comparison to a traditional approach.
The resulting visual landscape groups molecules with similar
chemical properties in densely connected regions
Methods of Hierarchical Clustering
We survey agglomerative hierarchical clustering algorithms and discuss
efficient implementations that are available in R and other software
environments. We look at hierarchical self-organizing maps, and mixture models.
We review grid-based clustering, focusing on hierarchical density-based
approaches. Finally we describe a recently developed very efficient (linear
time) hierarchical clustering algorithm, which can also be viewed as a
hierarchical grid-based algorithm.Comment: 21 pages, 2 figures, 1 table, 69 reference
Principal manifolds and graphs in practice: from molecular biology to dynamical systems
We present several applications of non-linear data modeling, using principal
manifolds and principal graphs constructed using the metaphor of elasticity
(elastic principal graph approach). These approaches are generalizations of the
Kohonen's self-organizing maps, a class of artificial neural networks. On
several examples we show advantages of using non-linear objects for data
approximation in comparison to the linear ones. We propose four numerical
criteria for comparing linear and non-linear mappings of datasets into the
spaces of lower dimension. The examples are taken from comparative political
science, from analysis of high-throughput data in molecular biology, from
analysis of dynamical systems.Comment: 12 pages, 9 figure
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