Question: flowCore: retain raw data in the flowset after transformation
0
gravatar for carlos.x.martinez-fleites
11 days ago by

Hello,

Using flowcore functions, I would like to keep columns containing raw data in a flowset after applying a transformation, example:

logicleT <- logicleTransform( w = 0.5, t= 10000, m =4.5) transformation <- transformList(c("FL2-A", "FL3-A", "FL6-A", "FL10-A"), logicleT ) newFlowSet <- transform(flowset, transformation)

If done as above, newFlowSet will contain flowframes with columns with transformed data and not the original data.

Is it possible at all to retain the original columns and add new columns with the transformed values?

Many thanks.

flow cytometry flowcore • 51 views
ADD COMMENTlink modified 10 days ago by Jiang, Mike1.2k • written 11 days ago by carlos.x.martinez-fleites0
Answer: flowCore: retain raw data in the flowset after transformation
0
gravatar for Jiang, Mike
10 days ago by
Jiang, Mike1.2k
(Private Address)
Jiang, Mike1.2k wrote:

You can do inline transformation,e.g.

newFlowSet <- transform(flowset, `trans-FL2-A` = logicleT(`FL2-A`), `trans-FL3-A` = logicleT(`FL3-A`))

By the way, why do you need the original columns?

ADD COMMENTlink written 10 days ago by Jiang, Mike1.2k

Thanks, this works nicely.

I want to keep all columns in the flowset for subsequent conversion into a single data.frame that I use as a data source for ggplot.

ADD REPLYlink written 10 days ago by carlos.x.martinez-fleites0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 253 users visited in the last hour