# (currentNe v1.0)
# Command: /data/poplife/scratch/abernabe/currentNe/currentNe -t 8 -o /data/poplife/scratch/abernabe/Equus_asinus/poplife/Ne/syr_Ne.txt /data/poplife/scratch/abernabe/Equus_asinus/poplife/Ne/syr_19.vcf 7
# Running time:5453.84sec
#
# INPUT PARAMETERS:
# Number of chromosomes in .map file:
7
# Genome size in Morgans:
7.00
# Total number of individuals in the input file:
2
# Effective Number of individuals included in the analysis (excluding missing genotypes):
2.00
# Number of SNPs in the input file:
1900000
# Number of SNPs included in the analysis:
1667119
# Number of SNP pairs included in the analysis:
1389642046521
# Expected amount of raw data (= individuals x SNPs pairs):
2779284093042
# Effective amount of raw data (may differ from the above one due to missing genotypes):
2779284093042
# Proportion of missing data:
0.00000000
# Number of full siblings that a random individuals has in the population:
Not given
## Number of full siblings that a random individuals has in the sample:
0.00
#
# OUTPUT PARAMETERS:
# Estimated F value of the population (deviation from H-W proportions):
-0.00508580
# Observed d^2 of the sample (weighted correlation of loci pairs):
0.43844718
# Observed d^2 of the sample (only between different cromosomes):
0.43837115
# Expected heterozygosity of individuals in the sample under H-W eq.:
0.41051936
# Observed heterozygosity of individuals in the sample:
0.54921184
#
# Ne estimation by integration over the whole genome (no genetic map available).
# Based on 1389642046521 pairs of SNPs.
# Ne point estimate:
100020000.00
# Lower bound of the 50% CI:
15155144.55
# Upper bound of the 50% CI:
660105904.39
# Lower bound of the 90% CI:
1003203.99
# Upper bound of the 90% CI:
9979396863.90
# Estimated Number of full siblings that a random individuals has in the population:
0.00
#
#
# Ne estimation based only on LD between chromosomes:
# Based on 1167412939842 pairs of SNPs between chromosomes.
# Ne point estimate:
100010000.00
# Lower bound of the 50% CI:
15151879.10
# Upper bound of the 50% CI:
660116150.40
# Lower bound of the 90% CI:
1002821.15
# Upper bound of the 90% CI:
9973862352.88
# Estimated Number of full siblings that a random individuals has in the population (c=0.5):
0.00
#