[EXTERNAL] Re: trasformation of matrix for iNEXT extrapolation interpolation of Hill's numbers

I'm not sure what your data looks like. But the reshape package can be
used to easily create matrix or array data from a 'long' format. Combining
that with split would make it relatively to create matrices.

library(iNEXT)
library(reshape2)
data(ciliates)
# Maybe your data is in long format like this:
df <- melt(ciliates, varnames = c('species', 'sample'), value.name =
'count')
# Then this will work
df.list <- lapply(split(df, df$L1), function(x) acast(x, species ~ sample,
value.var='count'))

# If your data is just one wide (sorted) matrix, then you just need lapply
and the column indices
mat <- acast(df, species ~ L1 + sample, value.var='count')
df.list <- lapply(list(c(1,17), c(18,36), c(37,51)), function(i)
mat[,i[1]:i[2]])

Regards,

Jason

-----Original Message-----
From: R-sig-ecology <r-sig-ecology-bounces at r-project.org> On Behalf Of
Irene Adamo
Sent: Thursday, June 20, 2019 07:28
To: r-sig-ecology at r-project.org
Subject: [R-sig-eco] trasformation of matrix for iNEXT extrapolation
interpolation of Hill's numbers

Hi all,

I am working with iNEXT package for diversity analyses however, I would
like to use a incidence_raw data type which in iNEXT is a list of matrices
like this:

data(ciliates)
head(ciliates)

$SouthernNamibDesert
                                                     x9 x17 x19 x20 x21 x22
x23 x24
Acaryophrya.collaris                                  0   0   0   0   0   0
  0   0
Actinobolina.multinucleata.n..sp.                     0   0   0   0   0   0
  0   0
Afroamphisiella.multinucleata.n..sp.                  0   0   0   0   0   0
  0   0
Afrothrix.multinucleata.n..sp.                        0   1   0   0   0   0
  0   0
Amphisiella.binucleata.multicirrata.n..ssp.           0   0   0   0   0   0
  0   0
Amphisiella.elegans.n..sp.                            0   0   0   0   0   0
  1   0
Amphisiella.longiseries.n..sp.                        0   0   0   0   0   0
  0   0
Amphisiella.magnigranulosa                            0   0   0   0   0   0
  0   1
Amphisiella.multinucleata.n..sp.                      0   0   0   0   0   0
  0   0
Amphisiella.namibiensis.n..sp.                        0   0   0   0   0   0
  0   0
Amphisiella.polycirrata                               0   0   0   0   0   0
  0   0
Amphisiella.procera.n..sp.                            1   0   0   0   0   0
  0   0

do you know how can I create anlist with four matrices like the one they
have in example data?

thanks a lot for any help!

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