Manhattan Plot

[dvitale199]

Is your feature request related to a problem? Please describe.
Need plotting method for summary statistics

Describe the solution you'd like
A clean, interactive manhattan plot implemented in plotly. zooming, snp selection would be great!

Describe alternatives you've considered
None

Additional context
None

[dvitale199]

create function from the following:

import gwaslab as gl

# read sumstat (you may need to read the gwas data in to a pandas dataframe first!)
EUR_sumstat = gl.Sumstats(
    "gwas_results/logistic.hybrid",
    snpid="ID",
    chrom="#CHROM",
    pos="POS",
    p="P",
    build="38"
)

#get lead variants
EUR_sumstat.get_lead(anno=True, build = "38", windowsizekb=500, sig_level=5e-8)

# annotate the lead variants
annot = ['chr1:5670117', 'chr2:97393816', 'chr16:46387290', 'chr19:44918903']

# manhattan plot
EUR_sumstat.plot_mqq(
    sig_level=5e-8,
    cut=15,
    anno="GENENAME",
    anno_set=annot,
    highlight=annot,
    highlight_windowkb=250,
    title="EUR CC",
    build="38",
    save="EUR_sumstat_gwaslab.manhattan.png"
)