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Commit 320d3a51 authored by pswain's avatar pswain
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change: updated to match new dataloader

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from wela.dataloader import dataloader
from wela.plotting import kymograph, plot_lineage
# from genutils import figs2pdf
import matplotlib.cm import matplotlib.cm
from wela.figs2pdf import figs2pdf
from wela.dataloader import dataloader, sort_df
from wela.plotting import kymograph, plot_lineage
datasets = ["Pdr5_3_11_22", "Pdr5_flc_10ugml_1676"] datasets = ["Pdr5_3_11_22", "Pdr5_flc_10ugml_1676"]
for dataname in datasets: for dataname in datasets:
dl = dataloader(".", "/Users/pswain/wip/tsv_data") dl = dataloader(".", "/Users/pswain/wip/tsv_data/pdr_with_gr/")
dl.load(dataname, use_tsv=True) dl.load(dataname, use_tsv=True)
df = dl.get_sorted_df("median_GFP") sdf = sort_df(dl.df, "median_GFP")
title = dataname.split(".")[0] title = dataname.split(".")[0]
kymograph(df, hue="buddings", title=title) kymograph(sdf, hue="buddings", title=title)
kymograph(df, hue="median_GFP", title=title) kymograph(sdf, hue="median_GFP", title=title)
kymograph( kymograph(
df, sdf,
hue="bud_growth_rate", hue="bud_growth_rate",
title=title, title=title,
vmin=-50, vmin=-50,
vmax=50, vmax=50,
cmap=matplotlib.cm.Spectral, cmap=matplotlib.cm.Spectral,
) )
# df.id = df.id.astype("object")
# df.to_csv(dataname + ".tsv", sep="\t", index=False)
# figs2pdf("fluconazole")
if False: if False:
figs2pdf("fluconazole")
plot_lineage(dl.ids[34], dl.df) plot_lineage(dl.ids[34], dl.df)
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