Count

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ExonDataReport

Indicates the count for a particular BAM file for an exon junction or exon. This is raw count (not normalized).

Note: Counts will be calculated and returned with fractions:

A. Exon Junctions

1. Multi-reads (where there is more than one alignment for a read) have to be counted as fractions

B. Exons

1. Multi-reads (where there is more than one alignment for a read) have to be counted as fractions

2. Reads that span more than two exons need to be counted fractionally, with percentage of nucleotides used for counting.

PairedEndFusionReport

Indicates the total number of read pairs for a specified FusionID.

ReportGeneTranscriptCounts

Sum of Count_Transcript values for a gene. Used to stablilize values by gene in calculation of Count.

All Other Reports

Indicates the total number of reads (or counts) for a specified Observation