Added an x_chr example #199

Author: gregorgorjanc

.gitignore

@@ -1,25 +1,26 @@
-*.pyo
-*.pyc
-dist
-bin
 __pycache__/
-*.py[cod]
+.Rproj.user
+.pytest_cache
 *.DS_Store
 *.egg-info/
+*.py[cod]
+*.pyo
+*.pyc
+**/.RData
+**/.Rhistory
+**/*.Rproj
+**/segfile.txt
 AlphaPeel
+AlphaPeel_env
+bin
+dist
 build/
 docs/build/
 example/outputs
-AlphaPeel_env
-tests/functional_tests/**/outputs/
-tests/functional_tests/**/outputs/**
+example/simple_*/*_output.*
+tests/accuracy_tests/accu_report.txt
 tests/accuracy_tests/outputs/
 tests/accuracy_tests/outputs/**
-.pytest_cache
-tests/accuracy_tests/accu_report.txt
-.Rproj.user
-**/.RData
-**/.Rhistory
-**/*.Rproj
-**/segfile.txt
 tests/accuracy_tests/sim_for_alphapeel_accu_test/seg_file.txt
+tests/functional_tests/**/outputs/
+tests/functional_tests/**/outputs/**

example/simple_example/simple_genotype.txt

@@ -1,3 +1,3 @@
 A 2 2 0 0 0
 B 0 0 2 2 2
-C 9 9 9 9 9
+C 9 9 9 9 9

example/simple_example/simple_pedigree.txt

@@ -1,3 +1,3 @@
 A 0 0
 B 0 0
-C A B
+C A B

example/simple_example_x/simple_genotype.txt

@@ -0,0 +1,10 @@
+A 1 1 1 1 0 0 0
+B 2 2 2 2 2 2 2
+C 1 9 1 9 1 9 1
+D 2 9 2 9 1 9 1
+E 1 9 1 9 0 9 1
+F 2 9 2 9 1 9 1
+G 1 1 1 1 1 1 1
+H 0 0 0 0 0 0 0
+I 0 0 0 0 0 0 0
+J 2 2 2 2 2 2 2

example/simple_example_x/simple_pedigree.txt

@@ -0,0 +1,10 @@
+A 0 0 0
+B 0 0 1
+C A B 0
+D A B 1
+E C D 0
+F C D 1
+G 0 0 0
+H 0 0 0
+I 0 0 1
+J 0 0 1