Blast URLAPI - blast2seq parameters · Biostar

This is a test version of Biostars. For the public version, visit https://www.biostars.org.

Blast URLAPI - blast2seq parameters

I've successfully used the blast urlapi to tblastn a set of queries against the specified NCBI database, but I've run into trouble finding documentation for the blast2seqs parameters. Does anyone have the parameter names to fill in the query and subject fields? If I could get an example using a single fasta query against multiple subjects (ID values) that would be great!

blast ncbi url urlapi

• 2,080 views • link

written 9.4 years ago by wardaustin40 •

1 answer

I've found the answer to my own question.

&QUERY= &SUBJECTS=

i couldn't find the SUBJECTS parameter in any documentation

• 0 views • link

written 9.4 years ago by wardaustin40 •

Log in to answer this question.

More posts like this

News: NCBI BLAST ClusteredNR database now available for blastx and PSI-BLAST searches
written 3.6 years ago by PeterC_NCBI •

ClusteredNR, the new protein database that provides results with a better overview of protein homologs in a wider range of organisms, is now available for …
NcbiblastpCommandline alignment results are different from blast webpage
written 4.3 years ago by laila.jafari •

Hi I used this code to blast alignment between my fasta files. ```py seq1 = SeqIO.read(fasta_file1, "fasta") seq2 = SeqIO.read(fasta_file2, "fasta") output = NcbiblastpCommandline(query=seq1, subject=seq2, …
BLASTP local vs website
written 5.2 years ago by timothy.kirkwood •

Hello, NCBI has an option to 'Align 2 or more sequences' in it's web portal for BLASTP (https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=Proteins&PROGRAM=blastp&BLAST_PROGRAMS=blastp&PAGE_TYPE=BlastSearch&BLAST_SPEC=blast2seq&DATABASE=n/a&QUERY=&SUBJECTS=). As I understand, the main point of …
command line Ncbi Blast SRA remote
written 5.4 years ago by acx01c •

I am willing to make a bunch of blast queries in ncbi hosted SRA datasets. The blast query is fast, I want to search for …
Microbial protein BLAST
written 6.1 years ago by orpita.d •

I am trying to run BLAST online using Biopython: from Bio.Blast import NCBIWWW result_handle = NCBIWWW.qblast("blastp", "nr", consensus_seq) How can I search only Microbial proteins, …
NCBI Blast Search Program Alignment Issue.
written 11.5 years ago by clear.choi •

Hi, I am using NCBI Alignment program in order to align sequence. And I have a question during alignment. There is Output sequence from the …
Ncbi Blast Command Line Align Two Sequences
written 12.7 years ago by Maria •

<p>I want to align 2 sequences using ncbi blast command line or bioperl script, I am new to blast and I found out that it …
Customize Link To Ncbi Blast Search
written 13.0 years ago by Alex

<p>I want to insert a link to NCBI Blast search into web page with given GI and coordinates. Link like this:</p> <pre><code><a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=Nucleotides&PROGRAM=blastn&QUERY={{ GI }}&DATABASE=nr&MEGABLAST=on&BLAST_PROGRAMS=megaBlast&LINK_LOC=nuccore&PAGE_TYPE=BlastSearch&QUERY_FROM={{ …
Running Blastp With Taxid
written 13.6 years ago by qselma •

<p>Using Ubuntu 12.10 and the blastp command from the ncbi-blast+ package from the official repos, I want to query the remote ncbi database. So far, …
How Ncbi Blastn Gets The List Of Organisms Programatically
written 15.6 years ago by raydoyle •

<p>Hi, Those who use the NCBI BLAST web site recognize the "Choose Search Set" box. After you select OTHER database and you type - in …