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FoxoTech
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methylcheck
Python-based Illumina methylation array quality control software.
MIT License
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Feature/v0.7.2
#49
Closed
marcmaxson
closed
3 years ago
marcmaxson
commented
3 years ago
v0.7.2
added GCT score to BeadArray controls report, ReportDF
ReportPDF changes
uses noob_meth/unmeth instead of raw, uncorrected meth/unmeth values for GCT and U vs M plot
inverted poobah table to report percent passing (instead of failing) probes per sample, like BeadArray report
this changed input from 'poobah_max_percent' (default 5%) to 'poobah_min_percent', (default 80%)
M_vs_U not included by default, because redundant with qc_signal_intensity
M_vs_U compare=True now labels each sample and has legend, so you can see effect of NOOB+dye correction on batch
added poobah color-coding to MDS plot
get_sex improved plotting
will read poobah data and size sample points according to percent of failed probes
save plots, or return fig, and more options now
fixed circleci so it runs unit tests 2X faster
v0.7.2