Matrix heatmap
Hi what is wrong with heatmap(as.matrix(test), col=my.colors(25)) with test from your dput Regards Petr
The heat map generated the correct result:
library(gplots)
arq <-read.table("l")
matrix_l <-data.matrix(arq)
my.colors <-
colorRampPalette(c
("gray0","gray10","gray20","gray30","gray40","gray50","gray60","gray80","gray90","gray100"))
heatmap.2(matrix_l,dendrogram="none", Rowv=NA, Colv=NA,
col=my.colors(256))
-------------------------- Now I have the following file with 5 data, similar to the above: RF00002 RF00013 RF00100 RF00381 RF00434 RF00453 RF00165 RF00496 RF00497 RF00014 RF00048 RF00234 RF00163 RF00008 RF00094 RF00032 RF00028 RF00216 RF00487 RF00209 RF00465 RF00485 RF00363 RF00366 RF00002 63 7 5 7 17 12 14 5 23 3 56 14 72 84
15 64 20 0 1 8 6 65 3 4 RF00013 45 7 4 6 17 12 14 5 23 3 56 12 60 84
15 64 20 0 0 2 2 65 3 4 RF00100 22 1 5 3 2 9 0 0 0 0 5 0 16 8 1 0 0 0 0 0 0 26 2 3 RF00381 63 7 5 13 17 11 3 5 18 3 56 14 33 12
2 15 4 18 12 25 11 69 3 4 RF00434 2 0 0 3 17 11 14 5 23 3 55 12 59 84
15 64 20 0 0 0 0 40 1 3 RF00453 3 1 0 2 16 12 13 3 7 0 45 12 42 78 15 53 20 0 0 0 0 33 2 0 RF00165 0 0 0 2 10 1 14 1 7 0 44 12 38 68 13 48 20 0 0 0 0 18 0 0 RF00496 0 0 0 0 0 0 1 5 6 0 0 0 4 2 0 0
0 0 0 0 0 0 0 0 RF00497 0 0 0 3 10 0 12 5 23 3 40 8 37 77 15 64 20 0 0 0 0 20 0 0 RF00014 0 0 0 0 0 0 0 0 8 3 6 0 0 0 0 0
0 0 0 0 0 0 0 0 RF00048 3 1 0 3 17 10 14 5 23 3 56 12 59 83
15 64 20 0 0 0 0 52 3 3 RF00234 62 7 5 6 17 12 14 5 23 3 56 14 70 84
15 64 20 0 0 0 1 65 3 4 RF00163 63 7 5 7 17 12 14 5 23 3 56 14 75 84
15 64 21 6 1 10 9 65 3 4 RF00008 3 1 0 3 17 12 14 5 23 3 56 12 58 84
15 64 20 0 0 0 0 52 3 2 RF00094 0 0 0 0 0 1 11 0 1 0 0 0 34 73 15
49 20 0 0 0 0 12 0 0 RF00032 0 0 0 3 10 1 14 5 23 3 56 12 43 80 15 64 20 0 0 0 0 21 0 0 RF00028 63 7 5 13 17 12 14 5 23 3 56 14 75 84 15 64 30 23 14 25 20 85 3 4 RF00216 63 7 5 13 17 12 14 5 23 3 56 14 75 84 15 64 28 23 14 25 20 85 3 4 RF00487 63 7 5 13 17 12 14 5 23 3 56 14 75 84 15 64 28 20 14 25 16 83 3 4 RF00209 50 7 5 3 2 2 0 0 0 0 1 2 26 4 0 0 1 0 8 25 5 28 3 3 RF00465 59 7 5 10 7 11 0 0 10 3 11 2 32 9 1 3 6 15 5 14 20 63 3 4 RF00485 63 7 5 13 17 12 14 5 23 3 56 14 75 84 15 64 26 17 14 25 19 85 3 4 RF00363 5 3 0 3 10 1 1 5 20 3 50 12 44 24 5 5 0 0 0 0 0 42 3 3 RF00366 8 2 1 4 14 9 13 5 23 3 52 12 51 68 12 8 0 0 0 0 0 48 3 4 Now I have the following file with 5 data, similar to the above: Is represented by an array of 25x25 and 10x10 not like the previous when I give the command dput (arch) it returns me the following output: structure(list(RF00002 = c(63L, 45L, 22L, 63L, 2L, 3L, 0L, 0L, 0L, 0L, 3L, 62L, 63L, 3L, 0L, 0L, 63L, 63L, 63L, 50L, 59L, 63L, 5L, 8L), RF00013 = c(7L, 7L, 1L, 7L, 0L, 1L, 0L, 0L, 0L, 0L, 1L, 7L, 7L, 1L, 0L, 0L, 7L, 7L, 7L, 7L, 7L, 7L, 3L, 2L), RF00100 = c(5L,
4L, 5L, 5L, 0L, 0L, 0L, 0L, 0L, 0L, 0L, 5L, 5L, 0L, 0L, 0L, 5L, 5L, 5L, 5L, 5L, 5L, 0L, 1L), RF00381 = c(7L, 6L, 3L, 13L, 3L, 2L, 2L, 0L, 3L, 0L, 3L, 6L, 7L, 3L, 0L, 3L, 13L, 13L, 13L, 3L, 10L, 13L, 3L, 4L), RF00434 = c(17L, 17L, 2L, 17L, 17L, 16L, 10L, 0L, 10L, 0L, 17L, 17L, 17L, 17L, 0L, 10L, 17L, 17L, 17L, 2L, 7L, 17L, 10L, 14L), RF00453 = c(12L, 12L, 9L, 11L, 11L, 12L, 1L, 0L, 0L, 0L, 10L, 12L, 12L, 12L, 1L, 1L, 12L, 12L, 12L, 2L, 11L, 12L, 1L, 9L), RF00165 = c(14L, 14L, 0L, 3L, 14L, 13L, 14L, 1L, 12L, 0L, 14L, 14L, 14L, 14L, 11L, 14L, 14L, 14L, 14L, 0L, 0L, 14L, 1L, 13L), RF00496 = c(5L, 5L, 0L, 5L, 5L, 3L, 1L, 5L, 5L, 0L, 5L, 5L, 5L, 5L, 0L, 5L, 5L, 5L, 5L, 0L, 0L, 5L, 5L, 5L ), RF00497 = c(23L, 23L, 0L, 18L, 23L, 7L, 7L, 6L, 23L, 8L, 23L, 23L, 23L, 23L, 1L, 23L, 23L, 23L, 23L, 0L, 10L, 23L, 20L, 23L ), RF00014 = c(3L, 3L, 0L, 3L, 3L, 0L, 0L, 0L, 3L, 3L, 3L, 3L, 3L, 3L, 0L, 3L, 3L, 3L, 3L, 0L, 3L, 3L, 3L, 3L), RF00048 = c(56L, 56L, 5L, 56L, 55L, 45L, 44L, 0L, 40L, 6L, 56L, 56L, 56L, 56L, 0L, 56L, 56L, 56L, 56L, 1L, 11L, 56L, 50L, 52L), RF00234 = c(14L, 12L, 0L, 14L, 12L, 12L, 12L, 0L, 8L, 0L, 12L, 14L, 14L, 12L, 0L, 12L, 14L, 14L, 14L, 2L, 2L, 14L, 12L, 12L), RF00163 = c(72L, 60L, 16L, 33L, 59L, 42L, 38L, 4L, 37L, 0L, 59L, 70L, 75L, 58L, 34L, 43L, 75L, 75L, 75L, 26L, 32L, 75L, 44L, 51L), RF00008 = c(84L, 84L, 8L, 12L, 84L, 78L, 68L, 2L, 77L, 0L, 83L, 84L, 84L, 84L, 73L, 80L, 84L, 84L, 84L, 4L, 9L, 84L, 24L, 68L), RF00094 = c(15L, 15L, 1L, 2L, 15L, 15L, 13L, 0L, 15L, 0L, 15L, 15L, 15L, 15L, 15L, 15L, 15L, 15L, 15L, 0L, 1L, 15L, 5L, 12L), RF00032 = c(64L, 64L, 0L, 15L, 64L, 53L, 48L, 0L, 64L, 0L, 64L, 64L, 64L, 64L, 49L, 64L, 64L, 64L, 64L, 0L, 3L, 64L, 5L, 8L), RF00028 = c(20L, 20L, 0L, 4L, 20L, 20L, 20L, 0L, 20L, 0L, 20L, 20L, 21L, 20L, 20L, 20L, 30L, 28L, 28L, 1L, 6L, 26L, 0L, 0L), RF00216 = c(0L, 0L, 0L, 18L, 0L, 0L, 0L, 0L, 0L, 0L, 0L, 0L, 6L, 0L, 0L, 0L, 23L, 23L, 20L, 0L, 15L, 17L, 0L, 0L), RF00487 = c(1L, 0L, 0L, 12L, 0L, 0L, 0L, 0L, 0L, 0L, 0L, 0L, 1L, 0L, 0L, 0L, 14L, 14L, 14L, 8L, 5L, 14L, 0L, 0L), RF00209 = c(8L, 2L, 0L, 25L, 0L, 0L, 0L, 0L, 0L, 0L, 0L, 0L, 10L, 0L, 0L, 0L, 25L, 25L, 25L, 25L, 14L, 25L, 0L, 0L), RF00465 = c(6L, 2L, 0L, 11L, 0L, 0L, 0L, 0L, 0L, 0L, 0L, 1L, 9L, 0L, 0L, 0L, 20L, 20L, 16L, 5L, 20L, 19L, 0L, 0L), RF00485 = c(65L, 65L, 26L, 69L, 40L, 33L, 18L, 0L, 20L, 0L, 52L, 65L, 65L, 52L, 12L, 21L, 85L, 85L, 83L, 28L, 63L, 85L, 42L, 48L), RF00363 = c(3L, 3L, 2L, 3L, 1L, 2L, 0L, 0L, 0L, 0L, 3L, 3L, 3L, 3L, 0L, 0L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L), RF00366 = c(4L,
4L, 3L, 4L, 3L, 0L, 0L, 0L, 0L, 0L, 3L, 4L, 4L, 2L, 0L, 0L, 4L,
4L, 4L, 3L, 4L, 4L, 3L, 4L)), .Names = c("RF00002", "RF00013",
"RF00100", "RF00381", "RF00434", "RF00453", "RF00165", "RF00496",
"RF00497", "RF00014", "RF00048", "RF00234", "RF00163", "RF00008",
"RF00094", "RF00032", "RF00028", "RF00216", "RF00487", "RF00209",
"RF00465", "RF00485", "RF00363", "RF00366"), class = "data.frame",
row.names
= c("RF00002",
"RF00013", "RF00100", "RF00381", "RF00434", "RF00453", "RF00165",
"RF00496", "RF00497", "RF00014", "RF00048", "RF00234", "RF00163",
"RF00008", "RF00094", "RF00032", "RF00028", "RF00216", "RF00487",
"RF00209", "RF00465", "RF00485", "RF00363", "RF00366"))
but he is not in scale with the gray color I wanted, like he looks like
this:
http://r.789695.n4.nabble.com/file/n4621356/Captura_de_tela-14.png
I wanted to do, that it generates histogram, stayed the count from 0 to
25
(because I have 25 data) and the value of (0-100) -- View this message in context: http://r.789695.n4.nabble.com/Matrix- heatmap-tp4619084p4621356.html Sent from the R help mailing list archive at Nabble.com.
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