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Name | Default Value | Parameter Range | Description |
|---|---|---|---|
TSS_MEAN | 25 | >0 | rate of the exponential for deviation of simulated transcription starts from annotated transcription start point, set to NaN (i.e., "not a number") to deactivate simulated transcription start variability |
POLYA_SCALE | 300 | >0 | scale parameter of the Weibull distribution describing poly-A tail lengths, set to NaN (i.e., "not a number") to deactivate simulated poly-A tails |
POLYA_SHAPE | 2 | >0 | shape paramter of the Weibull distribution describing poly-A tail lengths, set to NaN (i.e., "not a number") to deactivate simulated poly-A tails |
Algorithm
| Section |
|---|
Input: Columnn 6 of the PRO_FILE, i.e., the absolute number of RNA molecules that is simulated for a certain transcript in the experiment and the parameters of transcription start (TSS_MEAN) and poly-A tail variation (POLYA_SCALE, POLYA_SHAPE). |
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