943 days ago
Command line to create blast uniref database !
...ed), 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/unir...943 days ago
Command line to download blast database / protein
#download all available nr - protein database as a single file #Database location - NCBI where all databases are available ftp:...nih.gov/blast/db/ https://ftp.ncbi.nlm.nih.gov/blast/db/ # Database detail / description nr.*ta...936 days ago
Installing Covid19 Environment !
...\ Krona installed. You still need to manually update the taxonomy databases before Krona can generate ta...t is ktUpdateTaxonomy.sh. The default location for storing taxonomic databases is /home/vikas/anaconda3/env...916 days ago
Extract fasta header with ids !
#Extract all the fasta header name with certain ids kraken --db ../../../../DATABASE/minikraken_20171019_8GB.tgz out.fa more out.fa_class.txt | grep "227859" | awk '{print $2}' > a...870 days ago
657 days ago
Script to rapid genome clustering based on pairwise ANI
First, create a blast+ database: makeblastdb -in -dbtype nucl -out Next, use megablast from blast+ package to perform all-vs-all blastn of sequences: blastn -query -db -outf...628 days ago