ORF finding in DECIPHER
0
0
Entering edit mode
tkirkland • 0
@78b8b275
Last seen 5 months ago
United States

I am trying to find ORFs in a file of fasta sequences. I get the error " Iter Models Start Motif Fold Init UpsNt Term RBS Auto Stop Genes 1 1Error in lenScr[w] <- (lenScr[w[1L] - 1] - lenScr[w[1L] - 2]) * seq_along(w) + : replacement has length zero"

Code should be placed in three backticks as shown below


> S_wt_orfs <- FindGenes(S_wt_fa, showPlot=TRUE, allScores=TRUE)

Iter  Models Start Motif  Fold  Init UpsNt  Term   RBS  Auto  Stop Genes
1          1Error in lenScr[w] <- (lenScr[w[1L] - 1] - lenScr[w[1L] - 2]) * seq_along(w) +  : 
  replacement has length zero"
ORF DECIPHER ORFhunteR • 935 views
ADD COMMENT
0
Entering edit mode

Thanks for reporting this issue.

  1. Which version of DECIPHER are you using? 2.18 has known bugs but 2.20 should be fine.
  2. Are your sequences a genome? DECIPHER is intended to find genes in (intronless) genomes.
  3. Please send me your sequences so that I can reproduce the error.
ADD REPLY

Login before adding your answer.

Traffic: 626 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6