-
Notifications
You must be signed in to change notification settings - Fork 0
RILAB/IAmSam
Folders and files
Name | Name | Last commit message | Last commit date | |
---|---|---|---|---|
Repository files navigation
IAMSAM is a forward simulation to test predictions of the Indel Associated Mutation model. IAMSAM (Indel Associated Mutation with Selfing And the letter M) IAMSAM posits an infinite-allele indel site linked to a non-recombining infinite-sites SNP locus. Command line parameters are: R: relative mutation rate for indel hets F: selfing rate O: original selfing rate M: mutations rate per locus at SNPs I: mutations rate per site at the indel T: generations to run Q: generations at which selfing evolves S: random seed N: diploid popsize Output is `pop.F pop.R pi num_alleles is_indel`. Download iamsam.cc and compile with "g++ iamsam.cc -o iamsam -lgsl -lgslcblas -lm" (requires gnu scientific library). References Tian D, Wang Q, Zhang P, Araki H, Yang S et al. (2008) Single-nucleotide mutation rate increases close to insertions/deletions in eukaryotes. Nature 455: 105-108. Hollister JD, Ross-Ibarra J, Gaut BS (2010) Indel-associated mutation rate varies with mating system in flowering plants. Molecular Biology and Evolution 27: 409-416.
About
forward simulation of indel associated mutation model
Resources
Stars
Watchers
Forks
Releases
No releases published
Packages 0
No packages published