Results for "download"
Bio-Scripts
...be your home folder. Put it wherever you want to maintain such software: export PERL_BASE="$HOME/perl" mkdir -p $PERL_BASE cd $PERL_BASE # Download source tarball into a subfold...2152 days ago
Python script to download covid genome !
...Bio import Entrez allseq = {} for x in seqs: if 'gene-region' in x and x['gene-region'] == "complete": nm = x['accession'] print("downloading", nm) dna = Entrez.ef...1144 days ago
Download genome using NCBI esearch command line !
#Download using command line "NC_005956.1" / "CP003784.1" esearch -db nucleotide -query "NC_005956.1" | efetch -format fasta > seq1.fa esearch -db nucleotide -query...1109 days ago
Install BLAST in Ubuntu/Linux and Window !
#On ubuntu sudo apt-get install ncbi-blast+ #Ubuntu Conda installation conda install -c bioconda blast #Windows installation First: Download ftp://ftp.ncbi.nlm.nih.gov/blast...1155 days ago
Retrieve NCBI GenBank records with a range of accession numbers
...0; $retstart < $count; $retstart = $retstart + $retmax ) { message( $param{verbose}, "Downloading records "...2924 days ago
Install ATOM editor on Elemantory OS / Ubuntu
#Download ATOM deb file from https://atom.io/ https://atom.io/download/deb (base) bioqueen@bioque...paring to unpack .../bioqueen/Downloads/atom-amd64.deb ... Unpackin...en-Lenovo-ideapad-320-15ISK:~/Downloads/$ apm install atom-ide-ui I...1184 days ago
Download the genome from NCBI using bash script/command
#!/bin/bash # Download the genome from NCBI using command # Create...nomic_file_viral #Read the url from file and download FILES=$(pwd)/* for f in $...ftp://ftp.ncbi.nlm.nih.gov/pub/factsheets/HowTo_Downloading_Genomic_Data.pdf2540 days ago
Download the gff files from NCBI using bash script/command
#!/bin/bash # Download the genome from NCBI using command # Create a Directory mkdir genome_.../\2_genomic.gff.gz|' > genomic_file_viral #Read the uerl from file and download FILES=$(pwd)/* for f in $...2531 days ago
Download genomes in batch from NCBI
curl 'ftp://ftp.ncbi.nlm.nih.gov/genomes/genbank/bacteria/assembly_summary.txt' | awk '{FS="\t"} !/^#/ {print $20}' | sed -r 's|(ftp://ftp.ncbi.nlm.nih.gov/genomes/all/)(GCA/)([0-9]{3}/)([0-9]{3}/)([0-9]{3}/)(GCA_.+)|\1\2\3\4\5\6/\6_genomic.fna.gz|' > genomic_file2271 days ago
- ...le the code with a C++ compiler. TDM-GCC MinGW compiler which you can download from this link: https://sourceforge.net/projects/tdm-gcc/ Once you download and install the compiler, you...
858 days ago
