MediaWiki:Sidebar

• Pages
  • Main_Page#Overview|ANGSD overview
  • Download_and_installation|Installation
  • Quick_start|Quick start
  • Input|Input data

• Count based 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
  • HWE_and_Inbreeding_estimates|HWE and inbreeding
    • fasta | Create Fasta file
  • Association|Association
  • Genotype_calling|Genotype calling
  • SNP_calling|SNP Calling
  • tajima|Thetas,Tajima,Neutrality test

• Population structure
  • NGSadmix | Admixture
  • Fst_PCA |Fst & PCA
  • Abbababa |ABBABABA (D-stat)

• Output
  • beagle_input|Beagle input files
  • beagle_output | Beagle Output files
  • Glf_files|Genotype likelihood files
  • filters | Filter output
  • Plink |Plink

• custom analysis
  • angsd_class | overview of class
  • custom_start | getting started
  • data_access | accessing core data
  • custom_data | custom data containers
  • print | printing results

• About ANGSD
  • change_log|Version log
  • citing_angsd|Citing angsd
  • authors|Authors
  • Bugs | Bugs

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