using pfilt on uniref100 database
Is it necessary to use pfilt on uniref100 database before we use BLAST on the query?
The information related to pfilt is there in the given link:
http://bioinfadmin.cs.ucl.ac.uk/downloads/pfilt/
Anyone please suggest.
blastp
uniref100
pfilt
• 1,013 views
•
link
written
by
shalinikaushik1293
1
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
POSSUM Bioinformatics Tool
written by Muny 0I am trying to use the POSSUM Bioinformatics tool locally as I want to generate PSSM features using the UniRef100 database as my reference db. …
-
automation of shell script where I want to change filename after every result
written by shalinikaushik1293 1Hello everyone I want to run the pGenThreader script for a 7,000 proteins but for that I need to replace the protein file after every …
-
wrong version of formatdb was used to make database
written by shalinikaushik1293 1I am using uniref100 database for running the psipred script (runpsipred) on macOS. On running the runpsipred script : #!/bin/tcsh # This is a simple …
-
BLAST nr database
written by shalinikaushik1293 1I am running the command for BLAST : blastp -query /Users/shalini/Desktop/shalini/project/unmodelled_fasta/AAA18895.fasta -outfmt "7 sacc qcovs pident ppos evalue" -db=/Users/shalini/Downloads/nr -out=/Users/shalini/Desktop/shalini/project/blast_resultnr After running for one and …
-
Performing Hmmer search against pfam versus UniRef100
written by baverso 0Hello, I'm using [HMMER3][1] to perform a search of a single immunoglobulin sequence against a database, iteratively updating the HMM profile and seed family, by …
-
PSIPRED, how to install and make it work?
written by ac.research 3Dear All, I am trying to setup PSIPRED to run a secondary structure prediction but the README.md file is not detailed enough for a beginner …
-
How to calculate effective query length in TBLASTN
written by islama 0Hi,<br/> I am comparing a local alignment method with TBLASTN. In the BLAST report, I can't reproduce the effective query length value based on the …
-
help with installation of psipred
written by pingEde 4Hello! Does anyone install psipred ( http://bioinfadmin.cs.ucl.ac.uk/downloads/psipred/README) ? In the file README is reported that after you install psipred: "You must also install the PSI-BLAST …
-
blastn execution error, the correct command line format
written by vigneshprbh37 4So I am trying to test my blast+ standalone program with the following command ./blastn -db /home/Desktop/ncbi-blast-2.2.30+/db/nr -query /home/Downloads/sequence.fasta -out /home/CCMB/Downloads/output/result but every time I …
-
Trying To Run Psipred But Failing To Use Blastpgp
written by arronslacey 32<p>Hi - I am trying to run psipred (<a href='http://bioinfadmin.cs.ucl.ac.uk/downloads/psipred/'>http://bioinfadmin.cs.ucl.ac.uk/downloads/psipred/</a>) and it requires blast+ to be installed. I have done this, and all the blast …