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FoxoTech
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methylprep
Python-based preprocessing software for Illumina methylation arrays
MIT License
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Feature/v1.3.1
#73
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marcmaxson
closed
4 years ago
marcmaxson
commented
4 years ago
v1.3.1
run_pipeline() has 50% shorter processing time due to user-submitted changes
idats can be processed while gzipped (.idat.gz) and saved this way using --no_uncompress flag
'download' function manages FTP connection better
improved unit testing: download and process_series
run_pipeline() function has two new optional parameters
poobah_decimals: if you want more than the default 3 decimals saved in poobah_values.pkl and _processed.csv files-, then specify a higher limit.
poobah_sig: default significance level for excluding probes is 0.05. You can set it to something else in the 0.1 to 0.000001 range, if you want.
updated docs
v1.3.1