update_zres

The function is used for example when the main analysis failed for one individual.
The analysis is repeated for that individual with other parameters. The function
can then be used to insert the new results in the main zres object. To avoid
generating to large files, the updated zres object can take the same name as zres1
doing zres1 &lt;- update_zres(zres1,zres2).

Functions to identify Homozygous-by-Descent (HBD) segments associated with runs of homozygosity (ROH) and to
estimate individual autozygosity (or inbreeding coefficient). HBD segments and autozygosity are assigned to multiple HBD classes
with a model-based approach relying on a mixture of exponential distributions. The rate of the exponential distribution is distinct
for each HBD class and defines the expected length of the HBD segments. These HBD classes are therefore related to the age of the
segments (longer segments and smaller rates for recent autozygosity / recent common ancestor). The functions allow to estimate the
parameters of the model (rates of the exponential distributions, mixing proportions), to estimate global and local autozygosity
probabilities and to identify HBD segments with the Viterbi decoding. The method is fully described in Druet and Gautier (2017)
<doi:10.1111/mec.14324> and Druet and Gautier (2022) <doi:10.1016/j.tpb.2022.03.001>.

Tom Druet

RZooRoH

Partitioning of Individual Autozygosity into Multiple
Homozygous-by-Descent Classes

Naveen Kumar Kadri

Amandine Bertrand

Mathieu Gautier

update_zres function

<dl><dt>zres1</dt>
<dd>The main zres object that will be modified.</dd>
<dt>zres2</dt>
<dd>The new zres object, with the new results that will be inserted in the
main zres object.</dd></dl>

Arguments

Update one main zres object with new results — update_zres

<dl>

<dt>zres1</dt>
<dd>The main zres object that will be modified.</dd>


<dt>zres2</dt>
<dd>The new zres object, with the new results that will be inserted in the
main zres object.</dd>

</dl>

update_zres: Update one main zres object with new results

Description

Usage

Value

Arguments