Which book should one read together with Real Analysis by H. L. Royden and P. M. fitzpatrick, 4th edition, so that the former book (i) elaborates and clarifies the details omitted in the proofs in the latter, and (ii) contains solutions to some, most, or all of the exercise problems in the latter?
The great issue with model training is often the dataset. Model creators can only do so much filtering of the likes of Bluemoon and PIPPA, and in order to advance beyond the quality these can offer, model creators often have to pick through their own chats with bots, manually edit them to be better, and save them -- essentially creating a dataset from scratch. But model creators are not annotators, nor should they be. Manual work isn't scalable, it isn't fun, and it often isn't shareable (because people, sensibly, don't want to share the NSFL chats they have as public data).
We compute the EMD for comparing two cell populations that are defined either by a manual or an automated gating algorithm. First we compute signatures [20], which are histogram-like approximations of the data, for each of the two cell population. There are published methods for generating such signatures for image data [20]. However, generating the signatures for flow cytometry data requires a different approach, which we describe below. Once the signatures are generated, the EMD computation can be stated in terms of a linear programming problem.
Preprocess the data by sequentially using utilities available in AutoGate [29] ( ) to generate compensated data, transform it with the Logicle transformation [30], and cluster the transformed data with DBM [18]. Please see figure legends for gating sequences. The flow cytometry data prepocessing methods used here do not require user input for parameter such as number of clusters, number of grid bins, density threshold, manual gating for compensation purposes, etc.
Combining Logicle transformation, DBM for cell population identification, probability binning, EMD, and SVM provides a complete pipeline for computational classification of flow cytometry samples. However we would like to emphasize that the EMD approach for quantitative comparison of flow cytometric histograms works independently of how the population was defined, e.g. by using domain knowledge-driven manual gating, sequential automated clustering approach or simultaneous clustering approach. When we compare EMD to other metrics, we use exactly the same pipeline for each metric.
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