dumpSNPPIT: Export snppit file

Description Usage Arguments Author(s)

View source: R/dumpSNPPIT.r

Description

dumpSNPPIT() exports a file in SNPPIT format

Usage

1
2
3
4
5
dumpSNPPIT(baselinePops, mixturePops, markers, filename, errorFile = NULL,
  errorDefaultValue = NULL, POPCOLUMN_SEX = NULL,
  POPCOLUMN_REPRO_YEARS = NULL, POPCOLUMN_SPAWN_GROUP = NULL,
  OFFSPRINGCOLUMN_BORN_YEAR = NULL, OFFSRPINGCOLUMN_SAMPLE_YEAR = NULL,
  OFFSPRINGCOLUMN_AGE_AT_SAMPLING = NULL)

Arguments

baselinePops

the list of populations to be used as the parental baseline

mixturePops

the populations to be included as potential offspring

markers

the list of markers to be used in the snppit file

filename

what would you like to name the exported snppit file?

errorFile

if you have a .txt file containing the genotype error rates for each of the markers to be used in the snppit file, what is the name of the file? The .txt should contain 2 columns: 1) the name of each markers and 2) the error rate to be used

errorDefaultValue

if you don't have error rates for each of your markers, what would you like snppit to use as the default error rate

POPCOLUMN_SEX

If you would like to include sex information for the parents, which column in your input file contains the sex data?

POPCOLUMN_REPRO_YEARS

If you would like to include the year that the parents reproduced, which column in your input file contains the reporductive years?

POPCOLUMN_SPAWN_GROUP

If you would like to include spawn groups for the parents, which column in your input file contains the spawn groups?

OFFSPRINGCOLUMN_BORN_YEAR

If you would like to include the year born for offspring, which column contains that information?

OFFSRPINGCOLUMN_SAMPLE_YEAR

If you would like to include sampling year for offspring, which column in your input file contains that information?

OFFSPRINGCOLUMN_AGE_AT_SAMPLING

If you would like to include the age at sampling for offspring, which column in your input file contains that information?

Author(s)

Eric Grau and Mike Ackerman


mackerman44/idfgen documentation built on May 21, 2017, 4:46 p.m.