Histogram was gone

[xiekunwhy]

Hi,

Following this totural (https://github.com/KamilSJaron/smudgeplot/wiki/BGA24), I can't see this plot

But only a plot without histogram.

Best, Kun

[KamilSJaron]

I should update the plot in the tutorial!!!

Can you please past your plot without histograms here? We removed the histograms in the latest version because no one seems to be using them... A few people asked to add them back. We will, but there are some other priorities first :-)

[xiekunwhy]

Hi, here is mine, can you explain Y-axis in the new plot ?

[xiekunwhy]

I also hoping histogram back.

[KamilSJaron]

The y-axis is the same as it used to, but instead of giving you the coverage of the A + B in "1n coverage" units, it gives you the numerical scale. The 2n, ... etc you can tell by labels of smudges.

However, in your case the labels are terribly misplaced, would you mind sharing your smu file? I would like to see how that happened.

[xtwang0110]

I should update the plot in the tutorial!!!

Can you please past your plot without histograms here? We removed the histograms in the latest version because no one seems to be using them... A few people asked to add them back. We will, but there are some other priorities first :-)

Thanks for the update! I was just wondering whether the histograms have been added back in yet? If not, would you mind letting me know if there’s another way I might go about adding them myself?

[diriano]

Hi Kamil, I vote in favor of having at least a switch to add the histograms to the smudge plot. Best

[cjfields]

I agree, the histograms are nice as an option. We have also seen an issue with misplaced labels on the smudgeplot, in our case pretty extreme:

[KamilSJaron]

Sorry folks takes so much time, we are working on getting them back.

In fact, @samebdon have implemented them already, but I did manage to break them with some of the toy datasets, so we need to get it stable first and unfortunately have some other priorities now...

[samebdon]

You should now get histograms using the version on the master branch. You can install it with the following code, and you can do this within a conda environment if you want to. You need pip installed. Let me know if there are any problems we are working on the documentation.

OPTIONAL: conda create -n smudgeplot && conda activate smudgeplot conda install pip

Then: git clone https://github.com/KamilSJaron/smudgeplot.git cd smudgeplot && python -m pip install . smudgeplot -h # check it is working