Show the figure on console instead of saving in current folder įormat of figure to save. Show grid lines on plot with defined log fold change ( lfc_thr) and P-value ( pv_thr) threshold value gfont not compatible with gstyle=2.įigure size įigure resolution in dpi. If this option set to “deg” it will label all genes defined by lfc_thr and pv_thr įont size for genenames. The gene Ids must be present in the geneid column. This is necessary for plotting gene label on the points P-values or adjusted P-values cutoff for up and downregulated genes Log or absolute fold change cutoff for up and downregulated genes Name of a column having P-values or adjusted P-values Name of a column having log or absolute fold change values Pandas dataframe table having atleast gene IDs, log fold change, P-values or adjusted P-values columns How to use bioinfokit? Gene expression analysis Volcano plotī_exp.volcano(df, lfc, pv, lfc_thr, pv_thr, color, valpha, geneid, genenames, gfont, dim, r, ar,ĭotsize, markerdot, sign_line, gstyle, show, figtype, axtickfontsize, axtickfontname, axlabelfontsize,Īxlabelfontname, axxlabel, axylabel, xlm, ylm, plotlegend, legendpos, figname, legendanchor, legendlabels) Parameters _version_ '0.9.6' Download statistics Weekly Install using pip for Python 3 (easiest way) How to install?īioinfokit is developed in Python 3 and tested with Python versions >= 3.6īioinfokit can be installed using pip, easy_install and git. Visualize, and interpret the biological data generated from genome-scale omics experiments. The bioinfokit toolkit aimed to provide various easy-to-use functionalities to analyze,

One sample and two sample (independent and paired) t-tests.

Check allowed ID types for plant species for GenFam.

Gene family enrichment analysis (GenFam).

Bioinformatics file readers and processing (FASTA, FASTQ, and VCF).FASTQ batch downloads from SRA database.Principal component analysis (PCA) biplots.

Principal component analysis (PCA) loadings plots.

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