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
Jump to navigation
Jump to search
(Created page with "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...") |
No edit summary |
||
| Line 4: | Line 4: | ||
2) | 2) | ||
<pre> | |||
Rscript ../../angsd0.565/R/estError.R | Rscript ../../angsd0.565/R/estError.R | ||
Loading required package: remix | Loading required package: remix | ||
| Line 24: | Line 24: | ||
width ( 11 ) : width of the pdf | width ( 11 ) : width of the pdf | ||
cex ( 1 ) : scale of names | cex ( 1 ) : scale of names | ||
</pre> | |||
Revision as of 18:05, 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