Read before use
1, check data with precheck (windows version) tools
2, data from excel, copy and paste data into the input frame
3, data from txt, must tab-seperated, copy and paste data into the input frame
4, specieal and non-English characters such as #, <, >, %, (, ), α are not friendly
5, use point as decimal separator, not comma. e.g. 3.14, not 3,14 as pi
Required
Optional
Gene colorbar
gene lower color:
gene middle color:
gene higher color:

Gene colorbar data range
note: if both left blank, default [-abs(maxvalue), abs(maxvalue)]
gene colorbar min value (integer):
gene colorbar max value (integer):

Compound colorbar
compound lower color:
compound middle color:
compound higher color:

Compound colorbar data range
note: if both left blank, default [-abs(maxvalue), abs(maxvalue)]
compound colorbar min value (integer):
compound colorbar max value (integer):

Colorbar position (to avoid text overlap)


note: about 15s finish plot

pathview KEGG Pathway Map

Introduction
Use Pathview R to render the KEGG Pathway map. Add colors based on the values of genes or compounds. Combine the KEGG map, gene expression, metabolites informations.
The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG license agreement (details at http://www.kegg.jp/kegg/legal.html).
Input data instructions
Input data contains two columns: the first column is entrez gene id (pure integer) or KEGG compound id (start with C or D). the second column is values (log2fc, or other meaningful value).
the first cell in column one and row one is KEGG ID, please search at KEGG official website, for example, the KEGG ID of "NF-kappa B signaling pathway - Homo sapiens (human)" is hsa04064.
Gene entrez id and compound id can also get from this page. Gene ID is under the Gene term, compound ID is under the Compound term, Drug ID is under the Drug term.
More advanced usage, please refer to pathview official website: https://pathview.uncc.edu/
Paper example
Characterization of Stem-like Circulating Tumor Cells in Pancreatic Cancer Fig 5C.
Input Example
Output

1) How to plot?
1, Put data in excel according to the example format.
2, Copy and paste into input frame.
3, Input pre-checking button to check input
4, After checking pass, select parameters, submit and download

2) How to cite?
4000+ papers in (Google Scholar)
Tang D, Chen M, Huang X, Zhang G, Zeng L, Zhang G, Wu S, Wang Y. SRplot: A free online platform for data visualization and graphing. PLoS One. 2023 Nov 9;18(11):e0294236. doi: 10.1371/journal.pone.0294236. PMID: 37943830.

3) FAQs