The CIF contains information regarding the space group, the data indicators such as merging indices, the refinement indicators such as the R factors, goodness of fit, residual electron density, refinement convergence indicators and tabulated structure information, including tables of atomic parameters, bonds and angles.
Alignment files from all five pools were processed together using the sort, merge, index, and pileup programs within SAMtools version 0.1.12a (Li et al. 2009) to generate a single unfiltered pileup file.
Alignments from the retained reads were processed using the sort, merge, index, and pileup programs within SAMtools version 0.1.12a (Li et al. 2009) to generate an unfiltered pileup file for each of the five pools.
For practicality in the following statistical processing, we arbitrarily merge indices α and ζ into one measurement number α∈{1,…,90}.
Post-processing of reads was performed using Samtools (samtools.sf.net) and Picard (picard.sf.net) for removal of PCR duplicates, merging, and indexing [ 13].
For each aligned sample, duplicate reads were marked with Picard (version 1.79), and Samtools 0.1.16 (41) was used at various points along the analysis pipeline, e.g. the merging or indexing of bam files.
We merged these index ICU data with individual Medicare inpatient, outpatient and denominator data for the years 2001 through 2007, yielding a minimum of one year of data prior to, and up to five years of data following, the index ICU stay.
We then divided the students into groups with high or low counts on the Content indices by merging the Psychosocial and Concern indices into a Psychosocial/concern index in order to simplify the classification.
The results showed that the congestion index, merging ratio, ramp density, and average daily traffic significantly affect the crash frequency.
The infrastructural indicators are merged in indices.
