ANGSD: Analysis of next generation Sequencing Data
Latest tar.gz version is (0.938/0.939 on github), see Change_log for changes, and download it here.
Plink: Difference between revisions
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This method is essentially a wrapper around the existing genotype caller, and all options for the genotype caller can therefore be used for the plink formated output file. | This method is essentially a wrapper around the existing genotype caller, and all options for the genotype caller can therefore be used for the plink formated output file. | ||
See [[Genotype calling]] for options relating to calling genotypes. | |||
For dumping the plink file you should supply: | |||
;-doPlink 2 | |||
Revision as of 18:44, 12 September 2013
From version 0.549 we now support plink output files. Currently we only support the transposed .tfam/.tped files. But we are working on a native .bed/.bim/.fam dumper.
This method is essentially a wrapper around the existing genotype caller, and all options for the genotype caller can therefore be used for the plink formated output file.
See Genotype calling for options relating to calling genotypes. For dumping the plink file you should supply:
- -doPlink 2