This pipeline was created in the CDSB-Mexico 2018 by request of Leticia Vega and Veronica Jimenez.
The pipeline takes as input a list of genes (NCBI gene Ids) differentially expressed and creates descriptive plots.
The pipeline takes as input plaint text files with the next structure:
6083 UP
26804 UP
2224 UP
8431 UP
30836 UP
6924 DOWN
6464 DOWN
3399 DOWN
148327 DOWN
6278 DOWN
The first colum is the NCBI gene id and the second column if the gene is UP (up-expressed) or DOWN (down-expressed).
Select from the KEGG database the three letter code for the species who belong the genes id. Check the complete KEGG species IDs in the next url: link.
Declare the number of pathways to plot.
The package generates the next class of plots:
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