Description Usage Arguments Details Value Note Author(s) References See Also Examples

Beta t-test and degree of freedom for each gene or isoform are calculated in this function.

1 | ```
betattest(X, na, nb)
``` |

`X` |
count data of RNA reads containing N genes (or isoforms). |

`na` |
number of replicate libraries in condition A |

`nb` |
number of replicate libraries in condition B |

In beta t-test,

*t=\frac{(P_A-P_B)}{√(V_A+V_B)}*

where *P_A* and *P_B* are proportions of a gene or an isoform in conditions A and B, *V_A* and *V_B* are variances estimated in conditions A and B. They are outputted by betaparametVP.

return two lists:

`t` |
t-value list. |

`df` |
df list. df is degree of freedom. |

If pooled standard error is zero, then the t-value is not defined and set to be zero.

Yuan-De Tan [email protected]

Baggerly KA, Deng L, Morris JS, Aldaz CM (2003) Differential expression in SAGE: accounting for normal between-library variation. *Bioinformatics*, **19**: 1477-1483.

Yuan-De Tan, Anita M. Chandler, Arindam Chaudhury, and Joel R. Neilson(2015) A Powerful Statistical Approach for Large-scale Differential Transcription Analysis.*Plos One*. 2015 DOI: 10.1371/journal.pone.0123658.

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