Entering edit mode
5.9 years ago
kamel
▴
70
Hi,
I have the orthology results on 8 proteomes to generate the core, accessory and specific sequences.
I need to represent my data for a 100% Stacked Bar Chart or a histogram on R to see the cores, accessories and specific sequences between the 8 proteomes. Do you have an idea about which code to use or which ideas?
Below a part of the generated matrix I use
For information (if the first column at number 8 and the second 8 also means -> core sequence ) (If the 1: 1 ---> specific ). (The other: accessory)
Species Genes RS.faa KN.fasta YT.fasta JK.fasta NJ.fasta ER.fasta AZ.fasta QS.fasta
8 8 RS001_00035-RA KN013_12875-RA YT_13112-RA JK_12364-RA NJ_12794-RA ER_10866-RA AZ_13111-RA QS_12228-RA 7 7 RS001_00034-RA KN013_12876-RA YT_13116-RA JK005_12363-RA NJ_12793-RA ER_10865-RA * QS_12229-RA 8 8 RS001_00033-RA KN013_12877-RA YT_13113-RA JK005_12362-RA NJ_12792-RA ER_10864-RA AZ_12122-RA QS_12230-RA 8 8 RS001_00032-RA KN013_12878-RA YT_13114-RA JK005_12361-RA NJ_12791-RA ER_10863-RA AZ_12123-RA QS_12231-RA 7 7 RS001_00030-RA KN013_12880-RA YT_13111-RA JK005_12359-RA NJ_12789-RA ER_10861-RA AZ_12125-RA QS_12232-RA 8 8 RS001_00029-RA KN013_12881-RA YT_13102-RA NJ_12788-RA ER_10695-RA AZ_12126-RA QS_12233-RA 8 8 RS001_00027-RA KN013_12883-RA YT_13109-RA JK005_12356-RA NJ_12786-RA ER_10697-RA AZ_12128-RA QS_12235-RA 8 8 RS001_00026-RA KN013_12884-RA YT_13108-RA JK005_12355-RA NJ_12785-RA ER_10698-RA AZ_12129-RA QS_12236-RA 3 3 RS_13141-RA JK_13111-RA ER_13111-RA 2 2 KN_13119-RA NJ_13111-RA 4 4 KN_13181-RA YT_13111-RA ER_13111-RA QS_1371-RA 1 1 KN_15111-RA 2 2 YT_13111-RA JK_13111-RA 2 2 NJ_13111-RA ER_13111-RA 2 2 KN_13411-RA QS_1313-RA 1 1 RS_13111-RA 1 1 KN_13113-RA 1 1 YT_1318-RA
Can you try to tidy your formatting a bit? Just re-paste it, highlight it, and then use the
101 010
button. People will look at your data and not want to spend time helping you because the data looks very messy. They would have to copy-paste it and then spend time manipulating it to an 'analysis ready' format.If you just want a stacked barchart, just take a look at the
barchart
function in R. Also, look here:You are looking for the 2nd example in this article.
http://rgraphgallery.blogspot.com/2013/04/rg-stacked-bar-chart-number-and-percent.html