ANGSD: Analysis of next generation Sequencing Data
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Error estimation: Difference between revisions
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(Created page with "==Error estimation== ===Kim et al.=== Citation ===Using an outgroup===") |
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=Error estimation from polymorphic sites= | |||
===Kim et al.=== | ===Kim et al.=== | ||
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[[Kim11|Citation]] | [[Kim11|Citation]] | ||
=== | =Error estimation using an outgroup and an error free individual= | ||
; -doAncError [int] | |||
; -anc [filename] | |||
fasta file with the ancestral alleles | |||
; -ref [filename] | |||
fasta file of a reference (error free) individual. | |||
; -doAncError 1 | |||
; -doAncError 2 | |||
==additional options== | |||
; -minQ [int] | |||
default 0. Minimum allowed base quality score | |||
; -minMapQ [int] | |||
default 0. Minimum allowed mapping quality score | |||
Revision as of 14:50, 20 September 2012
Error estimation from polymorphic sites
Kim et al.
Error estimation using an outgroup and an error free individual
- -doAncError [int]
- -anc [filename]
fasta file with the ancestral alleles
- -ref [filename]
fasta file of a reference (error free) individual.
- -doAncError 1
- -doAncError 2
additional options
- -minQ [int]
default 0. Minimum allowed base quality score
- -minMapQ [int]
default 0. Minimum allowed mapping quality score