Question

Displaying Negative data from flow cytometers

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arnaud.colantonio • 0

@arnaudcolantonio-8998

Last seen 8.5 years ago

United States

I have received data from a novocyte cytometer which uses 24-bit data. Turns out most of the data in the negative population is clustered around zero and a lot of it is negative. How can I display this data using xyplot or plotgate?

flowcore flowworkspace flowviz • 1.3k views

ADD COMMENT • link updated 8.5 years ago by Jiang, Mike ★ 1.3k • written 8.5 years ago by arnaud.colantonio • 0

score 0 · Answer 1 · 2015-10-16

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Jiang, Mike ★ 1.3k

@jiang-mike-4886

Last seen 2.6 years ago

(Private Address)

xyplot or plotGate removes the marginal events by default, you can disable this behavior by passing 'margin = FALSE' option to them.

ADD COMMENT • link 8.5 years ago Jiang, Mike ★ 1.3k

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You can also specify the axis ranges , e.g.

plotGate(gs[[1]], "CD4", margin = F, ylim = c(-1e3, 3e3))

ADD REPLY • link 8.5 years ago Jiang, Mike ★ 1.3k

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Thanks for the tip. margin=F did the trick. The data presentation looks good using xlim="data" or a custom range. My problem now is that the data range displayed on both the x and y axes are not negative. All values are positive. Is there a way to adjust the displayed range?

ADD REPLY • link 8.5 years ago arnaud.colantonio • 0