Remove part of string after

Question

I am working with NCBI Reference Sequence accession numbers like variable a:

a <- c("NM_020506.1","NM_020519.1","NM_001030297.2","NM_010281.2","NM_011419.3", "NM_053155.2")

To get information from the biomart package I need to remove the .1, .2 etc. after the accession numbers. I normally do this with this code:

b <- sub("..*", "", a)

# [1] "" "" "" "" "" ""

But as you can see, this isn't the correct way for this variable. Can anyone help me with this?

User · Answer

We can pretend they are filenames and remove extensions   tools  file path sans ext a     1   NM 020506      NM 020519      NM 001030297   NM 010281      NM 011419      NM 053155

User · Answer

If the string should be of fixed length  then substr from base R can be used   But  we can get the position of the   with regexpr and use that in substr  substr a  1  regexpr        a -1    1   NM 020506      NM 020519      NM 001030297   NM 010281      NM 011419      NM 053155

User · Answer

You just need to escape the period   a  lt - c  NM 020506 1   NM 020519 1   NM 001030297 2   NM 010281 2   NM 011419 3    NM 053155 2    gsub            a   1   NM 020506      NM 020519      NM 001030297   NM 010281      NM 011419      NM 053155

User · Answer

You could do   sub       0-9        a    or  library stringr  str sub a  start 1  end -3

[r] Remove part of string after "."

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