ANGSD: Analysis of next generation Sequencing Data
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Genotype Likelihoods: Difference between revisions
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(Created page with "==Genotype likelihoods from alignments== ===Kim et al.=== Citation Citation ===Samtools=== ===GATK===") |
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==Genotype likelihoods from alignments== | ==Genotype likelihoods from alignments== | ||
; -GL [int] | |||
If your input is sequencing file you can estimate genotype likelhoods from the mapped reads. Four different methods are available. | |||
===soapSNP=== | |||
-GL 0 | |||
===Samtools=== | |||
-GL 1 | |||
===GATK=== | |||
-GL 2 | |||
===Kim et al.=== | ===Kim et al.=== | ||
-GL 3 | |||
[[Kim10|Citation]] [[Kim11|Citation]] | [[Kim10|Citation]] [[Kim11|Citation]] | ||