Questions tagged [orf]
6
questions
3
votes
2
answers
97
views
How to convert Sars-CoV-2 ORF1ab codon positions to ORF1b positions?
Some websites mention amino acid mutations as ORF1ab, most however use ORF1a/b instead.
So how can I translate from one to the other? What do I need to subtract from say ...
- 409
2
votes
1
answer
61
views
How to tackle an Index Error in my code for finding ORFs
I have created a python code that prints out all lengths of ORFs in a DNA sequence (start codon - "ATG", stop codons - "TAG", "TAA" and "TGA". It seems to give ...
2
votes
0
answers
150
views
How to extract Genbank sequence and identify ORFs from the sequence in R?
I used
ape::read.GenBank
and then used the function
ORFik::findORFs
to find ORFs in the sequence of interest. But the former ...
- 420
1
vote
1
answer
202
views
Bedtools get fasta and ORF from a blastX run
Hello I made a blastX research (A query genome in nucleotide format translated into protein in 6 reading frames against a protein dabatase)
And here is a head of ...
- 155
1
vote
0
answers
508
views
Prokka error message
I am trying to run Prokka but the following error message appears:
Could not run command: makeblastdb -hash_index -dbtype prot -in /cluster/software/prokka/1.13.7-gompi-2019a/db/kingdom/Archaea/sprot ...
- 11
0
votes
1
answer
301
views
how to Know the longest ORF in Protein?
I have a protein Seq. and I want to know
how to Know the longest ORF in this Protein?
and if there is any tutorial for this process ??
- 147