Questions tagged [e-utilities]
The e-utilities tag has no usage guidance.
5
questions
2
votes
2
answers
71
views
How to BLAST a protein against a large set of organisms?
I have a list of organisms with their full scientific names and Taxonomy IDs, total ~1500. I want to BLAST my protein against this 1500 genome or proteome. How can I do that?
Here a sample protein ...
- 596
0
votes
0
answers
14
views
xtract from eutilities not exctracting the information I need
I'm running the following command which uses the NCBI e-utilities:
esearch -db bioproject -query "PRJNA198476 [PRJA]" | esummary
This returns:
...
0
votes
1
answer
40
views
Error while using E-utilities on slurm HPC
I keep getting the error while using E-utilities on Slurm HPC, could you suggest how I can resolve it?
SCRIPT:
...
- 393
2
votes
1
answer
52
views
Why doesn't an (Entrez eutils) einfo request for "gene" return the link gene_nucleotide or gene_nucleotide_pos links?
I'm updating a galaxy tool wrapper for Entrez's eutils suite and I'm trying to create a form with valid link selections (among other things) based on the "from" & "to" ...
- 221
0
votes
1
answer
68
views
Extracting all information about a sample when using xtract from e-utilities
I would like to extract all information about each SAMPLE after running the following query (run the query and add a ...