How to best plot general expression data?

[sr320]

I am wanting to graph general characteristics of gene expression in several libraries (snippet below)

Something as simple as stacked bar that bins expression values, violin plot, etc.

for example below I am lookin for something with data plots (one for each library)

Gene	SRR12207404	SRR12207405	SRR12207406	SRR12207407
TRINITY_DN8691_c4_g1_i2	1230780	1.30E+06	9.64E+05	780843
TRINITY_DN43743_c3_g1_i1	747087	8.35E+05	6.20E+05	495716
TRINITY_DN9614_c1_g3_i1	607965	6.80E+05	4.67E+05	382833
TRINITY_DN46703_c9_g1_i4	543311	4.26E+05	5.42E+05	485921
TRINITY_DN43743_c3_g2_i1	348579	3.59E+05	2.46E+05	241063
TRINITY_DN9614_c1_g3_i3	323561	4.29E+05	2.55E+05	218356
TRINITY_DN3110_c0_g1_i5	268888	1.72E+05	1.57E+05	81328.3

maybe like

[sr320]

I have a feeling need to change to data frame were I have a column for Library

[kubu4]

You might be able to use this as a guide/reference? It would be boxplot/library.

https://github.com/epigeneticstoocean/2018_L18-adult-methylation/blob/main/code/05-ballgown-boxplots.md

[sr320]

Thanks - that looks great!

[kubu4]

Thanks - that looks great!

It should! You wrote it! 😄