Parameter file elements

From Linear Mixed Models Toolbox
Revision as of 11:28, 3 January 2021 by 127.0.0.1 (talk)
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pedigrees

Example:

<root>
 ..
 <pedigrees>
  pedigrees: a,b
  ...
 </pedigrees>
</root>

host: root

content:

  • key strings
example type variable type variable values default explanation
pedigrees: a,b compulsory csv word-list pedigree names none list content determines nominated-compulsory elements
  • nominated-compulsory elements

genotypes

grms

model

eqn

poly

jobs

Example:

<root>
 ..
 <jobs>
  jobs: solve,yh
  ...
 </jobs>
</root>

host: root

content:

  • key strings
example type variable type variable values default explanation
jobs: solve,yh compulsory csv word-list solve,sample,pevsample,mcemreml,yh none job sequence is determined by the list sequence. list content determines nominated-compulsory elements
  • nominated-compulsory elements

solve

Example:

<root>
 ..
 <jobs>
  ..
  <solve>
   solver: mysolver
  </solve>
  ..
 </jobs>
 ..
</root>

host: jobs

content:

  • key strings
example type variable type variable values default explanation
solver: mysolver compulsory word solver name none solver name must be the name of a previously defined solver

sample

pevsample

mcemreml

yh

samplers

sampler name

solvers

  • host: root

solver name

  • host: solvers
  • hosts mutually exclusive elements of which hard-coded names define the solver type

pcgiod

  • host: solver name
  • defines the solver is an iteration-on-data preconditioned gradient solver
element name element type host element hosts elements element function key string key word key string variable key string function key string type
pedigrees Automatic-optional root yes host elements of specific pedigrees pedigrees pedigree names nominates further elements compulsory
pedigree name Nominated-compulsory pedigrees no host information about a specific pedigree file pedigree file name provides pedigree file name compulsory
switch probabilistic pedigree is probabilistic optional
selfing pedigree contains selfing
phantomparents integer provides the number of individuals at the top of the pedigree which are phantom parents optional