User: Jacob

gravatar for Jacob
Jacob0
Reputation:
0
Status:
New User
Last seen:
2 hours ago
Joined:
1 week, 3 days ago
Email:
s*****************@gmail.com

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by Jacob

<prev • 14 results • page 1 of 2 • next >
0
votes
0
answers
77
views
0
answers
Comment: C: Command Line blast not returning the same results as web blast
... I feel like I have been, I guess I haven't? ...
written 3 days ago by Jacob0
2
votes
0
answers
77
views
0
answers
Command Line blast not returning the same results as web blast
... Right now I'm trying a general blast for everything and then searching for the matches by taxid or the seqid's. I'm tried other approaches using gilists and downloading genomes and have still not obtained the results I need. These are the results I receive from the online version when I search fo ...
blast blastn blast+ written 3 days ago by Jacob0
0
votes
0
answers
77
views
0
answers
Comment: C: Receiving an error when using blastn remotely within a loop. "service not found"
... What would you recommend, I don't know what else to post because all I know is that this error is happening ...
written 4 days ago by Jacob0
0
votes
0
answers
77
views
0
answers
Comment: C: Receiving an error when using blastn remotely within a loop. "service not found"
... I haven't had firewall problems with previous blast commands I've executed, but I'm not sure if I'm behind one. I just downloaded blast+ last week so I am probably on the latest. I put in a sleep command into my loop but I might already be blacklisted. Is there a way I can fix that? ...
written 4 days ago by Jacob0
0
votes
0
answers
77
views
0
answers
Receiving an error when using blastn remotely within a loop. "service not found" "null_connector" "Cannot read header" "Unable to read data" and "Failed to flush"
... I"m receiving the errors below when running this script. I don't know what the errors mean or how to fix them. Is it possible I was blocked from the blast server? Script I'm running for org in "Homo sapiens" "Mus musculus" ... ... do for gene in Acan ... ... ... do ...
blast blast+ blastn written 4 days ago by Jacob0 • updated 4 days ago by genomax27k
0
votes
1
answer
108
views
1
answers
Comment: C: How to download just the genomes I want for blast+: currently using update_blast
... Thank-you so much for your help. I edited the comment because it still wasn't working, but I think I just need to change the dbtype to fasta ...
written 4 days ago by Jacob0
0
votes
1
answer
108
views
1
answers
Comment: C: How to download just the genomes I want for blast+: currently using update_blast
... Thank-you, a few questions though **Main problem** I'm still getting an error with my makeblastdb command gunzip galGal5.fa.gz I assume you meant to type -in because I have no -I option. When I use -in as you did I get this error makeblastdb -in 'database/galGal5.fa' USAGE makebla ...
written 4 days ago by Jacob0
0
votes
1
answer
108
views
1
answers
Comment: C: How to download just the genomes I want for blast+: currently using update_blast
... Thank-you very much I've tried doing this method, but cannot execute it right and I do not know why server:database user$ ~/homebrew/bin/wget https://ftp.ncbi.nlm.nih.gov/genomes/Mus_musculus --2017-05-18 15:35:48-- https://ftp.ncbi.nlm.nih.gov/genomes/Mus_musculus Resolving ftp.ncbi.n ...
written 5 days ago by Jacob0
4
votes
1
answer
108
views
1
answer
How to download just the genomes I want for blast+: currently using update_blastdb.pl
... right now I'm running update_blastdb.pl --timeout 300 refseq_genomic. But this takes up hundreds of GB on my computer. I'm wondering if there is a way to get just the genomes I want For example, if I just want the genomes for Gallus gallus, Mus musculus, and Homo sapiens how can I do somethi ...
update_blastdb.pl ftp blastn refseq_genomic written 5 days ago by Jacob0
0
votes
1
answer
110
views
1
answers
Comment: C: which database to blast against genomes.
... Thanks, yeah it is basically for practice right now, I'm going to be making adjustments in the future though so I need to do it this way ...
written 5 days ago by Jacob0

Latest awards to Jacob

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 947 users visited in the last hour