Description Usage Arguments Details Value Author(s) References Examples

The main function of this package. Fits a number of row-linear models from a `MultiMeasure`

object, one for each matching row of the data matrices contained within it. Outputs a `ConsensusFit`

object containing per-platform, per locus consensus values for average, sensitivity and precision.

1 | ```
fitConsensus(multimeas)
``` |

`multimeas` |
An object of class |

For each locus, a row-linear model (Mandel 1994) is fit of the form

*Z_{ij} = a_{i} + b_{i}(x_{j} - \bar{x}) + d_{ij}*

where *Z_{ij}* is a matrix of measurements at the same genomic locus *k*, the row index *i=1,…,p* labels the platform or condition (microarray, library prep method for sequencing assay etc.) used and the column index *j=1,…,n* labels the biological samples that are interrogated at that locus on each of the *p* platforms. Hence *a_{i}* is the intercept (row averages of *Z_{ij}*), *b_{i}* the slope of the regression line (sensitivity) and *d_i = (n-2)^{-1}Σ_{j}d_{ij}^{2}* the residual mean square (precision) about the *i*th fitted line, noting that higher *d_i* corresponds to lower precision. Values of *a_i*, *b_i* and *d_i* can be found in the slots of the `ConsensusFit`

object.

For `MultiMeasure`

objects with 10,000 loci or more, a progress message is printed for every 10,000 loci fitted.

A `ConsensusFit`

object with slots containing various parameter values from the row-linear fits. More information can be found in the linked class description. Output from this function can then be passed to various plotting functions for data exploration.

Tim Peters <t.peters@garvan.org.au>

Mandel, J. (1994). Analyzing Interlaboratory Data According to ASTM Standard E691. In *Quality and Statistics: Total Quality Management* (pp. 59-59-12). 100 Barr Harbor Drive, PO Box C700, West Conshohocken, PA 19428-2959: ASTM International.

Mandel, J. (2012). The statistical analysis of experimental data. Courier Corporation. Chapter 13: “The Systematic Evaluation of Measuring Processes”.

Ku, H.H. (1969). Precision Measurement and Calibration. Volume 1. Statistical Concepts and Procedures (No. NBS-SP-300-VOL-1). Issued February 1969. US Department of Commerce. Chapter 3.7: “The Interlaboratory Evaluation of Testing Methods”. Mandel, J. and Lashof, T.W. p. 170.

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