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23 Open 12 Closed
23 Open 12 Closed
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Issues list

Fold change in results doesn't align with LFQ intensities
#42 opened Oct 3, 2024 by avanthi96
filter_missval function
#41 opened Jul 31, 2024 by fedeserral
plot_heatmap function not working as data_results gives 0 significant proteins
#40 opened Mar 6, 2024 by ahsenu00
P adiusted bigger than p value?
#39 opened Feb 19, 2024 by mavino
1
How to plot heat map for average values per sample?
#38 opened Jan 30, 2024 by AkilaWijerathnaYapa
Error in .ebayes(fit = fit, proportion = proportion, stdev.coef.lim = stdev.coef.lim, : No finite residual standard deviations
#37 opened Dec 10, 2023 by mbihie
Cannot download DEP package
#36 opened Nov 22, 2023 by ghost
Spearman correlation with plot_cor?
#35 opened May 2, 2023 by lfc13
Different p-value in each independent run?
#33 opened Dec 23, 2022 by Neo-xbx-00
4
plot_heatmap: extract specific cluster group from heatmap
#30 opened Jun 29, 2022 by phoebeshayin
1
Wrong results if the data is not sorted alphabetically
#29 opened May 2, 2022 by AlexWeinreb
Handling Technical and Biological Replicates
#27 opened Feb 21, 2022 by agave82
2
Interaction term
#25 opened Aug 17, 2021 by csijcs
Difference between get_results ratio and get_df_wide diff columns
#24 opened Mar 29, 2021 by kamoors
TMT analysis question used the DEP
#23 opened Mar 14, 2021 by Golden-proteogenomics
test_gsea(): EnrichR website not responding
#22 opened Feb 8, 2021 by PhilJur
2
Adding an option to output loadings plot in plot_pca()
#18 opened Mar 11, 2020 by gtluu
non-unique values when setting 'row.names
#17 opened Feb 28, 2020 by Jokendo-collab
filter_proteins based on proportion in one group
#15 opened Nov 5, 2019 by kunjiefan
Batch correction?
#11 opened Oct 8, 2019 by patrickturko
3
TMT analysis
#10 opened Oct 4, 2019 by dparrine
plot_heatmap: Placement of legend
#9 opened Aug 15, 2019 by adomingues
Remove 1 sample and all pvalue adj bump to 1.
#7 opened Feb 22, 2019 by ericloud
2
ProTip! no:milestone will show everything without a milestone.