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The fourth module generates counts of positive storyline scores for each classifier that are above the threshold.
This generates count-based miRNA expression data for subsequent statistical analysis.
Sam2counts.py (https://github.com/vsbuffalo/sam2counts/blob/master/sam2counts.py) generated count tables of the reads that aligned to the EST library.
For allelic coverage, the values must be divided by 2. A procedure generated count plots of the number of mapped read pairs in non-overlapping equal-length windows.
for f in 'cat files'; do samtools view -bS aligned/$f.Aligned.out.sam \ -o aligned/$f.bam; done The BAM files for a number of sequencing runs can then be used to generate count matrices, as described in the following section.
A total score was generated counting all "yes" responses for each study.
One method sums projections over a limited angular range, while another uses reconstructed SPECT data projected through an attenuation map to generate count-rich reprojected planar images [93].
In this way, the SIMIND program continuously maintains an accurate relation between the number of histories generating counts in the projection images and the underlying activity in a particular voxel in the source volume.
The counting areas were delineated at a 1.25× objective and generated counting areas of 150×150 µm.
The injured spinal cord was delineated at a 1.25× objective and generated counting grid of 300×300 um.
The sampling areas were separated by x y steps of 296.7 µm×296.7 µm, generating counts of 150 300 sampled cells per animal.
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