25 Mar
2011
25 Mar
'11
4:55 a.m.
Hello! I convert SOLiD csfasta- and qual-files to fastq-files and map those against Hg19 (Bowtie). I would like to use the resulting sam-files in the IGV browser (Broad Institute). Therefore, the sam-file need to be sorted an indexed. This could be done using the igvtools. However, it would be nicer if this sorting and indexing could be done automatically using GALAXY. I guess that it is certainly possible but I do not know how. Could anybody let me know how it works and what function I have to use, respectively? How can I sort the sam-file the correct way? Thank you in advance. Best regards Jo