https://bioinformaticsonline.com/snippets/view/43408/command-line-to-create-blast-uniref-database? https://bioinformaticsonline.com/snippets/view/43408/command-line-to-create-blast-uniref-database Tue, 28 Sep 2021 05:46:20 -0500 https://bioinformaticsonline.com/snippets/view/43408/command-line-to-create-blast-uniref-database #The NCBI BLAST+ distribution does not include 'blastpgp', it has been replaced by the 'psiblast' program.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]]> Surabhi Chaudhary https://bioinformaticsonline.com/snippets/view/43408/command-line-to-create-blast-uniref-database#item-annotation-3995 Sat, 02 Oct 2021 23:44:37 -0500 https://bioinformaticsonline.com/snippets/view/43408/command-line-to-create-blast-uniref-database#item-annotation-3995 wget ftp://ftp.uniprot.org/pub/databases/uniprot/uniref/uniref90/uniref90.fasta.gz gunzip -v uniref90.fasta.gz makeblastdb -in uniref90.fasta -dbtype prot -input_type fasta -out uniref90.fasta]]> Neel