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.
User:Thorfinn: Difference between revisions
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cex ( 1 ) : scale of names | cex ( 1 ) : scale of names | ||
</pre> | </pre> | ||
3. -filter to site | |||
4. add single pars | |||
Revision as of 19:29, 5 December 2013
Thorfinns angsd todolist
1) write error estimation on wiki, need more info
2)
Rscript ../../angsd0.565/R/estError.R Loading required package: remix Loading required package: plyr Loading required package: survival Loading required package: splines Warning message: no function found corresponding to methods exports from ‘ascii’ for: ‘show’ -> needed arguments: file : the ancError File -> optional arguments (defaults): out ( errorEst ) : Name of the out files indNames ( ind ) : postFix, file with names or comma seperated names of individuals nIter ( 100 ) : Numer of optimazation attemps subset ( NA ) : comma seperated numbers of the individuals to include main ( Error rate using an outgroup (Chimp) and a perfect man ) : maxErr ( 0.02 ) : maximum allowed error rate height ( 7 ) : height of the pdf width ( 11 ) : width of the pdf cex ( 1 ) : scale of names
3. -filter to site 4. add single pars