Hi, I am using galaxy-deeptools to analyze my data. But when I used plot correlation to visualize the correlation of my different cells, I don't know how to arrange the order of my samples. How can I do that rather than automatically generating the order? Thanks.
The order of the output in
plotCorrelation is the order of the input bigWig files in
multiBigwigSummary or the BAM files in
multiBamSummary. This in turn ends up being the order in your history (from top (highest history item number) to bottom (lowest history item number)). This is...not exactly ideal or even remotely apparent, but the only way to do things with the kind of "multi-select box" that we're using. An alternative would be for us to change how the BAM/bigWig files are selected such that you can only select one at a time (it's mimic the regions in
Please feel free to follow (and comment on!) deepTools issue #428, which I've opened so we can discuss how to better handle this, since I totally agree that how it's currently done isn't exactly great.