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khramts / assocplots

MIT License
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turn off -log10 in manhattan plot #1

Closed ArashBayat closed 6 years ago

ArashBayat commented 6 years ago

Would you please add an option to turn off -log10 when doing manhattan plot.

khramts commented 6 years ago

I have modified the code to allow turning off -log10. When the scaling option is set to 'none', the -log10 will not be applied. Otherwise, the scaling should be set to '-log10'. Example from the tutorial: manhattan( hip_m['f3'], hip_m['f1'], hip_m['f0'].astype(str), 'Hip men', type='single', chrs_plot=[str(i) for i in range(1,23)], chrs_names=chrs_names, cut = 0, title='Anthropometric traits', xlabel='chromosome', ylabel='-log10(p-value)', lines= [], colors = colors, scaling = 'none')

ArashBayat commented 6 years ago

Really appreciate it

On Wed, 28 Mar 2018 at 1:43 pm, Katya Khramtsova notifications@github.com wrote:

I have modified the code to allow turning off -log10. When the scaling option is set to 'none', the -log10 will not be applied. Otherwise, the scaling should be set to '-log10'. Example from the tutorial: manhattan( hip_m['f3'], hip_m['f1'], hip_m['f0'].astype(str), 'Hip men', type='single', chrs_plot=[str(i) for i in range(1,23)], chrs_names=chrs_names, cut = 0, title='Anthropometric traits', xlabel='chromosome', ylabel='-log10(p-value)', lines= [], colors = colors, scaling = 'none')

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