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| -rw-r--r-- | doc/manual.pdf | bin | 241449 -> 270399 bytes | |||
| -rw-r--r-- | doc/manual.tex | 5 |
2 files changed, 3 insertions, 2 deletions
diff --git a/doc/manual.pdf b/doc/manual.pdf index c602856..a057834 100644 --- a/doc/manual.pdf +++ b/doc/manual.pdf Binary files differdiff --git a/doc/manual.tex b/doc/manual.tex index 0a6210b..446b2f8 100644 --- a/doc/manual.tex +++ b/doc/manual.tex @@ -411,12 +411,13 @@ as 1 and major allele as 0. Missing genotypes are represented as ``NA'' values. One can use the following bash command (in one line) to generate -BIMBAM mean genotype file from IMPUTE genotype files +BIMBAM mean genotype file from IMPUTE genotype files \\ (\url{http://www.stats.ox.ac.uk/~marchini/software/gwas/file_format.html})\cite{Howie:2009}: % \begin{verbatim} cat [impute filename] | awk -v s=[number of samples/individuals] -'{ printf $2 "," $4 "," $5; for(i=1; i<=s; i++) printf "," $(i*3+3)*2+$(i*3+4); printf "\n" }' +'{ printf $2 "," $4 "," $5; for(i=1; i<=s; i++) \ + printf "," $(i*3+3)*2+$(i*3+4); printf "\n" }' > [bimbam filename] \end{verbatim} % |