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faq.renum_example

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Models

Animal model

DATAFILE
data.test
TRAITS
3
FIELDS_PASSED TO OUTPUT
5 6
WEIGHT(S)

RESIDUAL VARIANCE
5
EFFECT
1 cross alpha
EFFECT
2 cross alpha
RANDOM
animal
FILE
test.ped
FILE_POS
1 2 3 0 0
PED_DEPTH
5
(CO)VARIANCES
1 

Multiple trait animal model

DATAFILE
data.test
TRAITS
3 4
FIELDS_PASSED TO OUTPUT
5 6
WEIGHT(S)

RESIDUAL VARIANCE
5 2
2 4
EFFECT
1 1 cross alpha
EFFECT
2 2 cross alpha
RANDOM
animal
FILE
test.ped
FILE_POS
1 2 3 0 0
PED_DEPTH
5
(CO)VARIANCES
2 1
1 2 

Animal model with UPG

DATAFILE
data.test
TRAITS
3
FIELDS_PASSED TO OUTPUT
5 6
WEIGHT(S)

RESIDUAL VARIANCE
5
EFFECT
1 cross alpha
EFFECT
2 cross alpha
RANDOM
animal
FILE
test.ped
FILE_POS
1 2 3 0 4
PED_DEPTH
5
GEN_INT
1 3 10
UPG_TYPE
yob
1990 1995 2000 2005
(CO)VARIANCES
1 

Repeatability model 1

DATAFILE
data.test
TRAITS
3 4
FIELDS_PASSED TO OUTPUT
5 6
WEIGHT(S)

RESIDUAL VARIANCE
5 2
2 4
EFFECT
1 1 cross alpha
EFFECT
2 2 cross alpha
RANDOM
animal
FILE
test.ped
FILE_POS
1 2 3 0 0
PED_DEPTH
5
(CO)VARIANCES
2 1
1 2
EFFECT
2 2 cross alpha
RANDOM
diagonal
(CO)VARIANCES_PE
2 1
1 2 

Repeatability model 2

DATAFILE
data.test
TRAITS
3 4
FIELDS_PASSED TO OUTPUT
5 6
WEIGHT(S)

RESIDUAL VARIANCE
5 2
2 4
EFFECT
1 1 cross alpha
EFFECT
2 2 cross alpha
RANDOM
animal
OPTIONAL
pe
FILE
test.ped
FILE_POS
1 2 3 0 0
PED_DEPTH
5
(CO)VARIANCES
2 1
1 2
(CO)VARIANCES_PE
2 1
1 2 

Random regression model

DATAFILE
rrm.dat
TRAITS
9
FIELDS_PASSED TO OUTPUT

WEIGHT(S)

RESIDUAL_VARIANCE
1
EFFECT
7 cross alpha
EFFECT
6 cross alpha
RANDOM
animal
FILE
rrm.ped
RANDOM_REGRESSION
data
RR_POSITION
2 3 4 5
rrm.dat
rrm.ped

Maternal effect model

DATAFILE
data.test
TRAITS
3 4
FIELDS_PASSED TO OUTPUT
5 6
WEIGHT(S)

RESIDUAL VARIANCE
5 2
2 4
EFFECT
1 1 cross alpha
EFFECT
2 2 cross alpha
RANDOM
animal
OPTIONAL
mat
FILE
test.ped
FILE_POS
1 2 3 0 0
PED_DEPTH
5
(CO)VARIANCES
2 1 1 1
1 2 1 1
1 1 2 1
1 1 1 2
faq.renum_example.1539873611.txt.gz · Last modified: 2018/10/18 14:40 by shogo