Mercurial > repos > nilesh > rseqc
comparison test-data/output.inner_distance_plot.r @ 49:6b33e31bda10 draft
Uploaded tar based on https://github.com/lparsons/galaxy_tools/tree/master/tools/rseqc 1a3c419bc0ded7c40cb2bc3e7c87bfb01ddfeba2
| author | lparsons |
|---|---|
| date | Thu, 16 Jul 2015 17:43:43 -0400 |
| parents | |
| children | 09846d5169fa |
comparison
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| 48:2e6190c29c54 | 49:6b33e31bda10 |
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| 1 pdf('output.inner_distance_plot.pdf') | |
| 2 fragsize=rep(c(-248,-243,-238,-233,-228,-223,-218,-213,-208,-203,-198,-193,-188,-183,-178,-173,-168,-163,-158,-153,-148,-143,-138,-133,-128,-123,-118,-113,-108,-103,-98,-93,-88,-83,-78,-73,-68,-63,-58,-53,-48,-43,-38,-33,-28,-23,-18,-13,-8,-3,2,7,12,17,22,27,32,37,42,47,52,57,62,67,72,77,82,87,92,97,102,107,112,117,122,127,132,137,142,147,152,157,162,167,172,177,182,187,192,197,202,207,212,217,222,227,232,237,242,247),times=c(0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,0,0,1,0,1,0,0,2,0,0,2,0,0,0,1,0,1,1,0,0,0,1,0,0,0,0,0,0,0,0,1,0,0,1,0,1,0,0,0,0,0,0,0,1,0,1,1,0,1,0,1,0,0,0)) | |
| 3 frag_sd = sd(fragsize) | |
| 4 frag_mean = mean(fragsize) | |
| 5 frag_median = median(fragsize) | |
| 6 write(c("Mean insert size",frag_mean), stdout()) | |
| 7 write(c("Median insert size",frag_median), stdout()) | |
| 8 write(c("Standard deviation",frag_sd), stdout()) | |
| 9 hist(fragsize,probability=T,breaks=100,xlab="mRNA insert size (bp)",main=paste(c("Mean=",frag_mean,";","SD=",frag_sd),collapse=""),border="blue") | |
| 10 lines(density(fragsize,bw=10),col='red') | |
| 11 dev.off() |