Question: Questions On Directionality
gravatar for Maness, Nicholas J
6.8 years ago by
Maness, Nicholas J10 wrote:
Hi there, I apologize if this is covered in documentation or help threads. searched and it seemed it was not. I have several illumina rna-seq data sets that "should" be directional. It seems the directionality is very good, based on the visualization. First question is; in the visualization window, are the reads color coded by direction, i.e. are orange one direction and blue the other? If so, it looks like my data is >95% directional. Similar question, is there a way to quantify directionality of the data set? BTW, the data is RNA-seq data from rhesus macaques and i'm using the rhesus macaque genome build from UCSC. thanks very much, Nick Maness Tulane University
ADD COMMENTlink modified 6.8 years ago by Jeremy Goecks2.2k • written 6.8 years ago by Maness, Nicholas J10
gravatar for Jeremy Goecks
6.8 years ago by
Jeremy Goecks2.2k
Jeremy Goecks2.2k wrote:
Nick, Different colors in read data does indicate strandedness; hover over the track and click on the 'Edit Settings' icon (gear) to see/change the sense/anti-sense colors used. You can use the Filter SAM tool to filter for mapped strand. Good luck, J.
ADD COMMENTlink written 6.8 years ago by Jeremy Goecks2.2k
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