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* Changed iteritems() in estimateEscaleFactor to its python3 compatible items().
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* Added the missing argument (--clusterUsingSamples) to plotProfile.
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3.4.2
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* Programmed around a bug in matplotlib that prevented the plotCorrelation scatter plot from working. See https://bioinformatics.stackexchange.com/questions/12830/plot-correlation-between-several-bam-files/12831
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* bamPEFragmentSize now has -bs and -n options to allow adjusting the number of alignments sampled. Note that the default value is auto-adjusted if the sampling is too sparse.
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* bamPEFragmentSize now accepts single-end files.
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* The --hclust option to plotProfile and plotHeatmap continues even if one of the groups is too small for plotting (matplotlib will produce a warning that you can ignore). This was issue #280.
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2.0.1
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* A critical bug that prevented plotPCA from running was fixed.
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