Beginner needs help with R
You need the leading zeros, and 'numerics' just give the number without leading zeros. You can use 'sprintf' for create a character string with the leading zeros:
# this is using 'numeric' and drops leading zeros
seq1 <- paste("DQ", seq(060054, 060060), sep = "")
seq1
[1] "DQ60054" "DQ60055" "DQ60056" "DQ60057" "DQ60058" "DQ60059" "DQ60060"
# use 'sprintf' to create leading zeros
seq2 <- paste0("DQ", sprintf("%06d", seq(060054, 060060)))
seq2
[1] "DQ060054" "DQ060055" "DQ060056" "DQ060057" "DQ060058" "DQ060059" "DQ060060"
Jim Holtman Data Munger Guru What is the problem that you are trying to solve? Tell me what you want to do, not how you want to do it. On Sun, Feb 5, 2017 at 8:50 PM, Nabila Arbi <nabilaelarbi1912 at gmail.com> wrote:
Dear R-Help Team!
I have some trouble with R. It's probably nothing big, but I can't find a
solution.
My problem is the following:
I am trying to download some sequences from ncbi using the ape package.
seq1 <- paste("DQ", seq(060054, 060060), sep = "")
sequences <- read.GenBank(seq1,
seq.names = seq1,
species.names = TRUE,
gene.names = FALSE,
as.character = TRUE)
write.dna(sequences, "mysequences.fas", format = "fasta")
My problem is, that R doesn't take the whole sequence number as "060054"
but it puts it as DQ60054 (missing the zero in the beginning, which is
essential).
Could please tell me, how I can get R to accepting the zero in the
beginning of the accession number?
Thank you very much in advance and all the best!
Nabila
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