Get a table of fragments

fragments() Generates a table of fragments from a given peptide character string

Usage

fragments(
  sequence = "SAMPLE",
  type = c("y", "b"),
  charge = c(1, 2, 3, 4),
  loss = NULL
)

Arguments

sequence

a character string

type

a character

charge

an integer

loss

a character string

Value

a tibble

Examples

library(rpsm)
#> Error in library(rpsm): there is no package called ‘rpsm’
fragments("SAMPLER")
#>        ion        mz z     seq pair pos      type
#> 1   b1++++  22.76528 4       S  p01   1         b
#> 2    b1+++  30.01795 3       S  p01   1         b
#> 3   b2++++  40.52456 4      SA  p02   2         b
#> 4     b1++  44.52329 2       S  p01   1         b
#> 5   y1++++  44.53519 4       R  p06   1         y
#> 6    b2+++  53.69699 3      SA  p02   2         b
#> 7    y1+++  59.04450 3       R  p06   1         y
#> 8   b3++++  73.28468 4     SAM  p03   3         b
#> 9   y2++++  76.79584 4      ER  p05   2         y
#> 10    b2++  80.04185 2      SA  p02   2         b
#> 11     b1+  88.03931 1       S  p01   1         b
#> 12    y1++  88.06311 2       R  p06   1         y
#> 13   b3+++  97.37715 3     SAM  p03   3         b
#> 14  b4++++  97.54788 4    SAMP  p04   4         b
#> 15   y2+++ 102.05869 3      ER  p05   2         y
#> 16  y3++++ 105.06686 4     LER  p04   3         y
#> 17  b5++++ 125.81889 4   SAMPL  p05   5         b
#> 18  y4++++ 129.33005 4    PLER  p03   4         y
#> 19   b4+++ 129.72807 3    SAMP  p04   4         b
#> 20   y3+++ 139.75338 3     LER  p04   3         y
#> 21    b3++ 145.56209 2     SAM  p03   3         b
#> 22    y2++ 152.58440 2      ER  p05   2         y
#> 23  b6++++ 158.07954 4  SAMPLE  p06   6         b
#> 24     b2+ 159.07643 1      SA  p02   2         b
#> 25 MH+++++ 161.48742 5 SAMPLER  p00  NA precursor
#> 26  y5++++ 162.09017 4   MPLER  p02   5         y
#> 27   b5+++ 167.42276 3   SAMPL  p05   5         b
#> 28   y4+++ 172.10430 3    PLER  p03   4         y
#> 29     y1+ 175.11894 1       R  p06   1         y
#> 30  y6++++ 179.84945 4  AMPLER  p01   6         y
#> 31    b4++ 194.08847 2    SAMP  p04   4         b
#> 32  MH++++ 201.60745 4 SAMPLER  p00  NA precursor
#> 33    y3++ 209.12643 2     LER  p04   3         y
#> 34   b6+++ 210.43696 3  SAMPLE  p06   6         b
#> 35   y5+++ 215.78446 3   MPLER  p02   5         y
#> 36   y6+++ 239.46350 3  AMPLER  p01   6         y
#> 37    b5++ 250.63050 2   SAMPL  p05   5         b
#> 38    y4++ 257.65282 2    PLER  p03   4         y
#> 39   MH+++ 268.47418 3 SAMPLER  p00  NA precursor
#> 40     b3+ 290.11691 1     SAM  p03   3         b
#> 41     y2+ 304.16153 1      ER  p05   2         y
#> 42    b6++ 315.15180 2  SAMPLE  p06   6         b
#> 43    y5++ 323.17306 2   MPLER  p02   5         y
#> 44    y6++ 358.69162 2  AMPLER  p01   6         y
#> 45     b4+ 387.16967 1    SAMP  p04   4         b
#> 46    MH++ 402.20763 2 SAMPLER  p00  NA precursor
#> 47     y3+ 417.24559 1     LER  p04   3         y
#> 48     b5+ 500.25373 1   SAMPL  p05   5         b
#> 49     y4+ 514.29836 1    PLER  p03   4         y
#> 50     b6+ 629.29632 1  SAMPLE  p06   6         b
#> 51     y5+ 645.33884 1   MPLER  p02   5         y
#> 52     y6+ 716.37596 1  AMPLER  p01   6         y
#> 53     MH+ 803.40799 1 SAMPLER  p00  NA precursor