Results for "processing"
Bio-Scripts
..."; # Open $myDir foreach $seqFile (sort readdir(DIR)) { if ($seqFile =~ /\.fa$/) # if file ends in .fa { print "Processing $seqFile\n"; $outFil...2904 days ago
Converting from Windows-style to UNIX-style line endings with dos2unix
...rently installed.) Preparing to unpack .../dos2unix_7.3.4-3_amd64.deb ... Unpacking dos2unix (7.3.4-3) ... Setting up dos2unix (7.3.4-3) ... Processing triggers for man-db (2.8.3-2u...1165 days ago
Install ATOM editor on Elemantory OS / Ubuntu
...(3.2.6-4ubuntu1) ... Setting up gconf-service (3.2.6-4ubuntu1) ... Processing triggers for bamfdaemon (0.5.....2-0ubuntu1) ... Rebuilding /usr/share/applications/bamf-2.index... Processing triggers for libc-bin (2.27-3...1164 days ago
Download the genome from NCBI using bash script/command
.../)(GCF_.+)|\1\2/\2_genomic.fna.gz|' > genomic_file_viral #Read the url from file and download FILES=$(pwd)/* for f in $FILES do echo "Processing $f file..." filename=$(bas...2520 days ago
Unzip all the genome file and remove all fasta header except first one
#!/bin/bash gzip -d *.gz FILES=$(pwd)/* for f in $FILES do echo "Processing $f file..." if [[ $f =~ \.fna$ ]]; then awk ' /^>/ && FNR > 1 {next} {print $0} ' $f | sed '...2519 days ago
Download the gff files from NCBI using bash script/command
...)(GCF_.+)|\1\2/\2_genomic.gff.gz|' > genomic_file_viral #Read the uerl from file and download FILES=$(pwd)/* for f in $FILES do echo "Processing $f file..." filename=$(bas...2511 days ago
Loop over with all files in a directory in bash
...00196735.1_ASM19673v1_genomic.fna path=/home/urbe/Tools/SATSUMA/satsuma-code-0 for f in $FILES do if [ ${f: -4} == ".fna" ]; then echo "Processing $f file..." ff=$(basename...2319 days ago
Create genome scaffolding with Perl
#!/usr/bin/perl use warnings; use strict; use English; use Pod::Usage; ## uses pod documentation in usage code use Getopt::Long qw(:config auto_version auto_help...2296 days ago
- ...table dump) --table Table name within cSRA object, default is "SEQUENCE" PROCESSING Read Splitting...
2114 days ago
Installing Platypus on Ubuntu !
...ev. Preparing to unpack .../8-python3-dev_3.6.5-3ubuntu1_amd64.deb ... Unpacking python3-dev (3.6.5-3ubuntu1) ... Processing triggers for mime-support (3.60ubuntu1) ... Processing triggers for desktop-file-uti...2007 days ago
