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* Pages
** Main_Page#Overview|Overview
** introduction|introduction
** Download_and_installation|Installation
** Input|input data
** change_log|version log
** citing_angsd|citing angsd
** authors|Authors
** Bugs | Bugs
* Summaries
** alleles_counts|Allele counts
** depth|Depth
** base_quality|Base quality

* Methods
** realSFS|SFS estimation
** Genotype_likelihoods_from_alignments|Genotypes likelihoods
** Inferring_Major_and_Minor_alleles|Major and Minor
** Error estimation|Error estimation
** Allele_Frequency_estimation|Allele frequencies
<!-- ** SNP_Calling|SNP Calling -->
<!-- ** Covariance_matrix_for_PCA|PCA -->
** Association|Association
<!-- ** Heterozygosity|Heterozogosity -->
<!-- ** HWE_and_Inbreeding_estimates|HWE and inbreeding -->
** Genotype_calling|Genotype calling
** SNP_calling|SNP Calling

* Output
** beagle_input|beagle input files
** Glf_files|Genotype likelihood files
** filters | filter output

* navigation
** mainpage|mainpage-description
** portal-url|portal
** currentevents-url|currentevents
** recentchanges-url|recentchanges
** randompage-url|randompage
** helppage|help
* SEARCH
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