Surabhi Chaudhary
A Bioinformatician
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Command line to create blast uniref database !
By Surabhi Chaudhary 1154 days ago Comments (1)
#The NCBI BLAST+ distribution does not include 'blastpgp', it has been replaced by the 'psiblast' program. The 'blastpgp' program is available in the legacy NCBI BLAST package (no longer supported), which is available from the NCBI's FTP site: ftp://ftp.ncbi.nlm.nih.gov/blast/executables/release/2.2.26/.
wget ftp://ftp.uniprot.org/pub/databases/uniprot/uniref/uniref90/uniref90.fasta.gz
gunzip -v uniref90.fasta.gz
bin/pfilt uniref90.fasta > uniref90filt
formatdb -t uniref90filt -i uniref90filt
#When using NCBI BLAST+ the 'formatdb' command should be replaced by the equivalent 'makeblastdb' command:
makeblastdb -dbtype prot -in uniref90filt -out uniref90filt
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