Hello All,

.

I am trying to use LINKMFEX to check (and, if possible, correct) Mendelian Inheritance errors in a dataset to be used for linkage mapping.

.

I am struggling to get consistent information from the LINKMFEX manual, and I could use some directions from anyone that used this software before.

.

The only information the manual gives is:

.

.

- "LepMap formatted genotype files"

- "comma delimited or .csv file"

- "the first two rows must be the parents of the family"

- "the first line . . .No_of_loci, X" where X is the number of loci

- "the second line. . .No_of_progeny, Y" Y is number of offspring

.

.

Using that information, I produced a file similar to the one below

.

.

No_of_loci,3

No_of_progeny,3

1,1,0,0,1,0,1,2,1,1,1,2

1,2,0,0,2,0,1,2,1,2,0,0

1,3,1,2,0,0,1,1,1,1,1,1

1,4,1,2,0,0,1,2,1,2,1,2

1,5,1,2,0,0,2,2,1,2,1,2

.

.

each row is an individual, the first 6 columns are pedigree data (LepMap format, linkage format) and the remaining columns are alleles (2 alleles per locus).

.

The first row then states:

Family, IndividualID, FatherID, MotherID,Sex,Phenotype, Locus1-allele1, Locus1-allele2, etc

1, 1, 0,0,1,0,1,2,1,1,1,2

.

Family = 1, ID = 1, father = 0 = unknown, mother = 0 = unknown, sex= 1 = male, phenotype = 0 = unknown, locus 1 = 12 = heterozygote, locu 2 = 11 = homozygote, etc

.

I checked that no spaces are present, but when I select the file I get the message:

.

"Run-time error '9':

Subscript out of range"

.

Any help is greatly appreciated as documentation for this software is limited.

.

Kind regards,

Lorenzo

Similar questions and discussions