Physical Sciences and Mathematics Commons^™

Utilization Of Probabilistic Models In Short Read Assembly From Second-Generation Sequencing, Matthew W. Segar

Honors Theses

With the advent of cheaper and faster DNA sequencing technologies, assembly methods have greatly changed. Instead of outputting reads that are thousands of base pairs long, new sequencers parallelize the task by producing read lengths between 35 and 400 base pairs. Reconstructing an organism’s genome from these millions of reads is a computationally expensive task. Our algorithm solves this problem by organizing and indexing the reads using n-grams, which are short, fixed-length DNA sequences of length n. These n-grams are used to efficiently locate putative read joins, thereby eliminating the need to perform an exhaustive search over all possible read …

On A Problem Of Burnside, Matthew Mizuhara

Honors Theses

Burnside posed the question as to whether or not there exist groups having an external automorphism that behaves in a certain, specific way like an inner automorphism: we shall define such automorphisms to be nearly-inner.

NI-groups are fairly rare. With the aid of the computer algebra system Magma - in particular with the aid of its small group database - we set out to test this hypothesis.

Verifying Harder's Conjecture For Classical And Siegel Modular Forms, David Sulon

Honors Theses

A conjecture by Harder shows a surprising congruence between the coefficients of “classical” modular forms and the Hecke eigenvalues of corresponding Siegel modular forms, contigent upon “large primes” dividing the critical values of the given classical modular form.

Harder’s Conjecture has already been verified for one-dimensional spaces of classical and Siegel modular forms (along with some two-dimensional cases), and for primes p 37. We verify the conjecture for higher-dimensional spaces, and up to a comparable prime p.

Sedimentology, Depositional Age, And Provenance Of Sedimentary And Volcanic Rocks Exposed Along Willow Creek, Eastern Susitna Basin, South-Central Alaska: Implications For Modification Of A Forearc Basin By Spreading Ridge Subduction, Erin E. Donaghy

Honors Theses

This is the first detailed study of the westernmost portion of the outcrop belt, which extends along the western flank of the Talkeetna Mountains and includes thick, well-exposed outcrops along Willow Creek in the eastern Susitna basin. New sedimentologic, compositional, and geochronologic data were obtained from stratigraphic sections within Arkose Ridge Formation strata at Willow Creek. This data combined with new geologic mapping and geochronologic data from Willow Bench and Kashwitna River Bluff (north of Willow Creek), and from the Government Peak area (east of Willow Creek), help constrain depositional processes and source terranes that provided detritus to the westernmost …

Behavioral Economics And Physician Behavior, Allyssa S. Ward

Honors Theses

This study seeks to answer whether the availability heuristic leads physicians to utilize more medical care than is economically efficient. Do rare, salient events alter physicians' perceptions about the probability of patient harm? Do these events lead physicians to overutilize certain medical procedures? This study uses Pennsylvania inpatient hospital admissions data from 2009 aggregated at the physician level to investigate these questions. The data come from the 2009 Pennsylvania Health Care Cost Containment Council (PHC4).

The study is divided into two parts. In Part I, we examine whether bad outcomes during childbirth (defined as maternal mortality, an obstetric fistula or …

Mesoproterozoic Deposition, Regional Metamorphism And Deformation In North-Central New Mexico: Evidence From Metamorphic Monazite And Detrital Zircon Geochronology In The Picuris Mountains, Lily S. Pfeifer

Honors Theses

Detrital zircon and metamorphic monazite ages from the Picuris Mountains, north central New Mexico, were used to confirm the depositional age of the Marquenas Formation, to document the depositional age of the Vadito Group, and to constrain the timing of metamorphism and deformation in the region.

Detrital zircon 207Pb/206Pb ages were obtained with the LA-MC-ICPMS from quartzites collected from the type locality of the Marquenas Formation exposed at Cerro de las Marquenas, and from the lower Vadito Group in the southern and eastern Picuris Mountains. The Marquenas Formation sample yields 113 concordant ages including a Mesoproterozoic age population with four …

Evaluating Bucknell's Waste Stream, Hallie S. Kennan

Honors Theses

This thesis examines three questions regarding the content of Bucknell University‟s waste stream and the contributors to campus recycling and solid waste disposal. The first asks, “What does Bucknell‟s waste stream consist of?” To answer this question, I designed a campus-wide waste audit procedure that sampled one dumpster from each of the eleven „activity‟ types on campus in order to better understand Bucknell‟s waste composition. The audit was implemented during the Fall semester of the 2011-2012 school year. The waste from each dumpster was sorted into several recyclable and non-recyclable categories and then weighed individually. Results showed the Bison and …