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Fold change in results doesn't align with LFQ intensities

Status: Open.

#42 In arnesmits/DEP;

· avanthi96 opened on Oct 3, 2024

filter_missval function

Status: Open.

#41 In arnesmits/DEP;

· fedeserral opened on Jul 31, 2024

plot_heatmap function not working as data_results gives 0 significant proteins

Status: Open.

#40 In arnesmits/DEP;

· ahsenu00 opened on Mar 6, 2024

P adiusted bigger than p value?

Status: Open.

#39 In arnesmits/DEP;

· mavino opened on Feb 19, 2024

How to plot heat map for average values per sample?

Status: Open.

#38 In arnesmits/DEP;

· akila-wijerathna-yapa opened on Jan 30, 2024

Error in .ebayes(fit = fit, proportion = proportion, stdev.coef.lim = stdev.coef.lim, : No finite residual standard deviations

Status: Open.

#37 In arnesmits/DEP;

· mbihie opened on Dec 10, 2023

Cannot download DEP package

Status: Open.

#36 In arnesmits/DEP;

· ghost opened on Nov 22, 2023

Spearman correlation with plot_cor?

Status: Open.

#35 In arnesmits/DEP;

· lfc13 opened on May 2, 2023

Different p-value in each independent run?

Status: Open.

#33 In arnesmits/DEP;

· Neo-xbx-00 opened on Dec 23, 2022

plot_heatmap: extract specific cluster group from heatmap

Status: Open.

#30 In arnesmits/DEP;

· phoebeshayin opened on Jun 29, 2022

Wrong results if the data is not sorted alphabetically

Status: Open.

#29 In arnesmits/DEP;

· AlexWeinreb opened on May 2, 2022

Handling Technical and Biological Replicates

Status: Open.

#27 In arnesmits/DEP;

· agave82 opened on Feb 21, 2022