MIMAR package was shared to the population genetic community, well documented (see pdf files) and maintained until 2010.

The main C program that estimates the demographic parameters of an "isolation-migration" model from recombining loci.

see documentation here

###mimargofdir: Perl scripts perlgofest and perlgof call the program MIMARgof to generate samples under an "isolation-migration" model with either point estimates of the parameters provided by MIMAR, or sets of parameters sampled from the posterior distribution estimated by MIMAR.

R script "testGOF.R" to help the user test whether the estimated model fit the data.

see documentation here

C code that simulates a data set under the "isolation- migration" model

see documentation here

AlgoGenePipeline.py <Disease_name> <lifetime_prevalence>:

I) variant aggregation : all the information is gathered for the genetic variation of interest

II) Data aggregation : all the variants are aggregated for the disease of interest

III) Data selection : good variants are selected for the disease of interest (QC & selection routine)

IV) Adjusted calculation: selected variatns go throug adjusted odds ration calculation

V) Ethnicity decision : Genophen covers about 6 different ethinicities at the time of this writting. what is the default ethnicity for the disease of interest

gets lists of pmids from google sheets in specific google drive directories

Translates a (0-based) transcript coordinate to a (0-based) genome coordinate.

see exercise description here

see documentation here

see tests description here

see input files here

see output files here