remove quotes from matrix

Works fine for me. What do you object to in the following?

Calling the above df "d",

dm <- as.matrix(d)
dm

  Sub_Pathways            BMI_beta   SAT_beta   VAT_beta
1 "Alanine_and_Aspartate" " 0.23820" "-0.02409" " 0.94180"
2 "Alanine_and_Aspartate" "-0.31300" "-1.97510" "-2.22040"
3 "Alanine_and_Aspartate" " 0.12380" " 0.40950" " 0.68050"
4 "Alanine_and_Aspartate" " 0.30350" " 0.48610" " 0.70830"
5 "Alanine_and_Aspartate" "-0.00982" " 0.32930" " 0.01597"
  VSR_beta
1 " 0.24690"
2 "-0.23540"
3 " 0.05539"
4 " 0.01337"
5 "-0.04353"

dimnames(dm)

[[1]]
[1] "1" "2" "3" "4" "5"

[[2]]
[1] "Sub_Pathways" "BMI_beta"     "SAT_beta"     "VAT_beta"
[5] "VSR_beta"

dm <- noquote(dm)
dm

  Sub_Pathways          BMI_beta SAT_beta VAT_beta VSR_beta
1 Alanine_and_Aspartate  0.23820 -0.02409  0.94180  0.24690
2 Alanine_and_Aspartate -0.31300 -1.97510 -2.22040 -0.23540
3 Alanine_and_Aspartate  0.12380  0.40950  0.68050  0.05539
4 Alanine_and_Aspartate  0.30350  0.48610  0.70830  0.01337
5 Alanine_and_Aspartate -0.00982  0.32930  0.01597 -0.04353

dimnames(dm)

[[1]]
[1] "1" "2" "3" "4" "5"

[[2]]
[1] "Sub_Pathways" "BMI_beta"     "SAT_beta"     "VAT_beta"
[5] "VSR_beta"


Perhaps you need to read ?noquote or ?matrix.

-- Bert



Bert Gunter

"The trouble with having an open mind is that people keep coming along and
sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )

On Tue, Sep 19, 2017 at 8:20 AM, greg holly <mak.hholly at gmail.com> wrote:

Dear all;

Thanks. Here are the dput results as Duncan suggested.

Regards,

Greg

structure(list(Sub_Pathways = structure(c(3L, 3L, 3L, 3L, 3L), .Label =
c("Acetylated_Peptides",
"Advanced_Glycation_End-product", "Alanine_and_Aspartate", "Aminosugar",
"Ascorbate_and_Aldarate", "Carnitine", "Ceramides", "Creatine",
"Diacylglycerol", "Dipeptide", "Dipeptide_Derivative",
"Disaccharides_and_Oligosaccharides",
"Eicosanoid", "Endocannabinoid", "Fatty_Acid(Acyl_Carnitine)",
"Fatty_Acid(Acyl_Glycine)", "Fatty_Acid,_Amino", "Fatty_Acid,_Branched",
"Fatty_Acid,_Dicarboxylate", "Fatty_Acid,_Dihydroxy",
"Fatty_Acid,_Monohydroxy",
"Fatty_Acid_(Acyl_Choline)", "Fatty_Acid_(Acyl_Glutamine)",
"Fatty_Acid_(also_BCAA)",
"Fatty_Acid_Synthesis", "Fibrinogen_Cleavage_Peptide",
"Fructose,_Mannose_and_Galactose",
"Gamma-glutamyl_Amino_Acid", "Glutamate", "Glutathione", "Glycerolipid",
"Glycine,_Serine_and_Threonine", "Glycogen",
"Glycolysis,_Gluconeogenesis,_and_Pyruvate",
"Guanidino_and_Acetamido", "Hemoglobin_and_Porphyrin", "Histidine",
"Inositol", "Ketone_Bodies", "Leucine,_Isoleucine_and_Valine",
"Long_Chain_Fatty_Acid", "Lysine", "Lyso-phospho-ether", "Lysolipid",
"Lysoplasmalogen", "Medium_Chain_Fatty_Acid",
"Methionine,_Cysteine,_SAM_and_Taurine",
"Mevalonate", "Monoacylglycerol", "Nicotinate_and_Nicotinamide",
"Oxidative_Phosphorylation", "Pantothenate_and_CoA", "Pentose",
"Phenylalanine_and_Tyrosine", "Phospholipid", "Plasmalogen",
"Polyamine", "Polypeptide", "Polyunsaturated_Fatty_Acid_(n3_and_n6)",
"Primary_Bile_Acid", "Purine,_(Hypo)Xanthine/Inosine_containing",
"Purine,_Adenine_containing", "Purine,_Guanine_containing",
"Pyrimidine,_Cytidine_containing",
"Pyrimidine,_Orotate_containing", "Pyrimidine,_Thymine_containing",
"Pyrimidine,_Uracil_containing", "Riboflavin", "Secondary_Bile_Acid",
"Short_Chain_Fatty_Acid", "Sphingolipid", "Steroid", "Sterol",
"TCA_Cycle", "Tocopherol", "Tryptophan",
"Urea_cycle;_Arginine_and_Proline",
"Vitamin_A", "Vitamin_B6"), class = "factor"), BMI_beta = c(0.2382,
-0.313, 0.1238, 0.3035, -0.00982), SAT_beta = c(-0.02409, -1.9751,
0.4095, 0.4861, 0.3293), VAT_beta = c(0.9418, -2.2204, 0.6805,
0.7083, 0.01597), VSR_beta = c(0.2469, -0.2354, 0.05539, 0.01337,
-0.04353)), .Names = c("Sub_Pathways", "BMI_beta", "SAT_beta",
"VAT_beta", "VSR_beta"), row.names = c(NA, 5L), class = "data.frame")

On Tue, Sep 19, 2017 at 10:04 AM, Duncan Murdoch <
murdoch.duncan at gmail.com>
wrote:

On 19/09/2017 9:47 AM, greg holly wrote:

Hi all;

I have data at 734*22 dimensions with rows and columns names are
non-numeric.When I convert this data into matrix then all values show

up

with quotes. Then when I use
x1= noquotes(x) to remove the quotes from the matrix then non-numeric

row

names remain all other values in matrix disappear.

Your help is greatly appreciated.

Matrices in R can have only one type.  If you start with a dataframe and
any columns contain character data, all entries will be converted to
character, and the matrix will be displayed with quotes.

When you say all values disappear, it sounds as though you are

displaying

strings containing nothing (or just blanks).  Those will be displayed

as ""

normally, but if the matrix is marked to display without quotes, they

are

displayed as empty strings, so it will appear that nothing is displayed.

You can see the structure of the original data using the str() function,
e.g. str(x) should display types for each column.

If this isn't enough to explain what's going on, please show us more
detail.  For example, show us the result of

y <- x[1:5, 1:5]
dput(y)

both before and after converting x to a matrix.

Duncan Murdoch

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