RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference transposable elements. Please read the wiki page (link below) for usage instructions. Also, there is a page on the wiki describing how the 1000 genomes CEU trio was carried out with the files and parameters used for the various steps.
Dear all:
I'm trying to run the RetroSeq Discovery Phase:
perl retroseq.pl -discover -bam /zhangxuqiang/TEs/NUMB_9.rmmouse.nodup.bam -output /zhangxuqiang/TEs/candidates.tab
But the RetroSeq don't creat the output file( candidates.tab), so when I trying to run the RetroSeq Calling,i don't have the input file.
If you have any insight about it, I'll be grateful!
Dear all: I'm trying to run the RetroSeq Discovery Phase: perl retroseq.pl -discover -bam /zhangxuqiang/TEs/NUMB_9.rmmouse.nodup.bam -output /zhangxuqiang/TEs/candidates.tab But the RetroSeq don't creat the output file( candidates.tab), so when I trying to run the RetroSeq Calling,i don't have the input file.
If you have any insight about it, I'll be grateful!