Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Question: Makeblast db with more sequences in fasta format
1
gravatar for marghe08
2.4 years ago by
marghe08 • 10
marghe08 • 10 wrote:

Hello! I am a beginner and I need help. I downloaded from NCBI two distinct fasta files, which contain both a nucleotide sequence, and are saved in a folder on my pc; these are the names of the files: NG_006672.1.fasta NG_006682.3.fasta using locally blast would like to create a database, with makeblastdb command, which contains my 2 fasta sequences. How can I do?
blast blastdb • 1.1k views
ADD COMMENT • link •
modified 2.4 years ago by RamRS ♦ 21k • written 2.4 years ago by marghe08 • 10
4
gravatar for RamRS
2.4 years ago by
RamRS ♦ 21k
Houston, TX
RamRS ♦ 21k wrote:

Just cat the fasta file and use the concatenated FASTA file as the input to the -in argument. Here's NCBI manual on how to use makeblastdb https://www.ncbi.nlm.nih.gov/books/NBK279688/

Either cat them as a preliminary sep or use the syntax -in <(cat file1.fa file2.fa) to use a subshell in the makeblastdb
ADD COMMENT • link modified 2.4 years ago • written 2.4 years ago by RamRS ♦ 21k
1
gravatar for Sej Modha
2.4 years ago by
Sej Modha ♦ 4.1k
Glasgow, UK
Sej Modha ♦ 4.1k wrote:

https://www.ncbi.nlm.nih.gov/books/NBK279688/
ADD COMMENT • link written 2.4 years ago by Sej Modha ♦ 4.1k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 931 users visited in the last hour