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This task involves analysis of a next-generation sequencing data set to extract a number of parameters from the data. The DNA sample is a subsection of the human genome that has been targeted using a new technology for selecting parts of the genome for sequencing. The goal of the program is to assess the performance of the technique by analysis of the data.
Experience processing NGS data sets is required, and as these data sets are large, authentication of available compute resources will be the first milestone of the program. The program will consist of several phases:
1. Load all of the read data into a working set
2. For each read identify the genomic location where it maps
3. Produce a genome-wide map of all locations showing the amount of sequence coverage at each location.
4. Report the amount of coverage in several special categories:
a. coverage entirely inside the targeted regions
b. coverage by reads that are partly inside and partly outside the targeted regi...
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