![]() ![]() ![]() scatter ( data, data, s = 1, edgecolor = 'none', c = z ) ax. set_title ( 'Uncompensated' ) ax = pylab. In addition, there is a web page for FlowJo FAQs (Frequently-Asked Questions). scatter ( data, data, s = 1, edgecolor = 'none', c = z ) ax. The online help documentation provides tutorials for Compensation, Kinetics, andDNA/Cell Cycle analysis in addition, Tree Star provides Demonstration Data to let youexplore these platforms. Bring up the Compensation Definition dialog window, or Compensation Wizard. Set a gate for the positive and negative populations for each singly-stained sample. figure ( figsize = ( 8, 4 )) ax = pylab. Compensation Example This is a simple example showing how to do three-color compensation in FlowJo. ![]() rename_node ( 't1', 'compensated' ) fig = pylab. To see all of our video content, visit our YouTube Channel (and Subscribe) FlowLogic ClusterLogic Tutorial Series CompLogic Auto-compensation Tutorial. rename_node ( 't1', 'uncompensated' ) data. On the other hand, Flowjo also has some features which at least I have not found yet in Cytobank (overlay of scatterplots for example), and it allows for more fine tuning, customizing and. logicle () # logicle the data so it looks more like you are used to seeing data. loadFCS ( 'E6901F0T-07_CMV pp65.fcs', auto_comp = False, transform = None ) data. load_compensate_matrix ( 'CompMatrixDenny06Nov09' ) data = fcm. Import fcm import fcm.graphics as graph import matplotlib.pyplot as pylab sidx, comp = fcm. Of working with the FCMdata data tree which will be covered in the next section Logicle transforms and compensation to a FCMdata object. The code below shows how to control and manually apply The transform argument of log or automatic transformation can be prevented by setting theįurther FCMdata provides pensate(), FCMdata.logicle(),Īnd FCMdata.log() methods. The log transform can be used instead by passing As can be seen, there are significant differences between the matrices. The percentage difference between week 1 and week 2 was calculated. By default when loading anįcs file loadFCS() will apply the logicle transform to all fluorescent channels withĪ range of 262144 (PNR in the fcs header). The compensation matrix was calculated in Flowjo. Return the laser names (sidx) and compensation matrix exported in the format used by Flowjo.įcm also supports the logicle and log data transforms. You to provide your own compensation matrix by passing in the comp and sidx arguments, orĬan not compensate by passing False as the auto_comp argument to loadFCS().įor convenience fcm provides the load_compensate_matrix() which will By default loadFCS() compensates fcsĭata using the compensation matrix provided in fcs file header. To try and counter fluorescent spill over. Along with reading FCS files, fcm provides methods to apply compensation ![]()
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