sim_seq: Simulate sequence data for a pedigree
In SimRVSequences: Simulate Genetic Sequence Data for Pedigrees

Simulate sequence data for a pedigree

1 2	sim_seq(ped_file, founder_genos, SNV_map, chrom_map, RV_marker, burn_in = 1000, gamma_params = c(2.63, 2.63/0.5))

`ped_file`	Data frame. A single pedigree. Must match format of pedigree simulated by sim_RVped
`founder_genos`	Dataframe. A dataframe with rows corresponding to founders, and columns corresponding to markers. Markers must be listed in same order as `SNV_map`.
`SNV_map`	Data frame. A data frame that catalogs the SNVs in `haplos`. If the `read_slim` function was used to import SLiM data to `R`, the data frame `Mutations` is of the proper format for `SNV_map`. However, users must add the variable `is_CRV` to this data frame, see details.
`chrom_map`	Data.frame. A data.frame consisting of three columns: column 1 contains the chromosome numbers, column 2 start postion of chromosome (in cM), column 3 end position of chromosome (in cM).
`RV_marker`	character. The marker name of the RV locus.
`burn_in`	Numeric. The "burn-in" distance in centiMorgan, as defined by Voorrips and Maliepaard (2012), which is required before simulating the location of the first chiasmata with interference. By default, `burn_in = 1000`. The burn in distance in cM. By default, `burn_in = 1000`.
`gamma_params`	Numeric list of length 2. The respective shape and rate parameters of the gamma distribution used to simulate distance between chiasmata. By default, `gamma` `_params` `= c(2.63, 2*2.63)`, as discussed in Voorrips and Maliepaard (2012).