Results for "Command"
Bio-Scripts
Install Parrot Virtual Machine !
...poke and prod your system to figure out how to build Parrot. The process is completely automated, unless you passed in the `--ask' flag on the command line, in which case I'll prom...1551 days ago
Install Python locally on shared Linux server !
...cify where to put the #related output of make command, by default it is in the /usr...rtant step. By the default, if we type python command, it will use the default pyth...ry easy to install pip. #Run the following command to install pip as a local use...2112 days ago
- ...fig-file PATH/TO/GATK/PROPERTIES/FILE gatk forwards commands to GATK and adds some sugar...--spark-master must be specified --spark-submit-command may be specified to control t...
2089 days ago
- ...ns/catimg/catimg.sh | 2 +- plugins/coffee/_coffee | 4 +- plugins/command-not-found/command-not-found.plugin.zsh | 2 +...
2088 days ago
Installing pb-assembly on Linux !
...pbbam: 0.18.0-h1310cd9_1 bioconda pbcommand: 1.1.1-py27h24b...########################################| Time: 0:00:00 21.90 MB/s pbcommand-1.1. 100% |##################...2048 days ago
- ...it-sym-local/links os.symlink('.git/git-sym-local/links', '/home/users/j/n/jnarayan/FALCON-examples/.git-sym') git: 'check-ignore' is not a git command. See 'git --help'. mkdir -p...
2048 days ago
Installing Platypus on Ubuntu !
...le. You should consider upgrading via the 'pip install --upgrade pip' command. (py27) ➜ Platypus git:(m...^ pysam/ctabix.c: At top level: cc1: warning: unrecognized command line option ‘-Wno-unneeded-in...2033 days ago
Setting up falconUnzip conda environments for genome assembly !
...py_0 22 KB bioconda pbcommand-1.1.1 |...0.18.0-h1310cd9_1 bioconda pbcommand: 1.1.1-py27_2...################################## | 100% pbcommand-1.1.1 | 193 KB | ####...2003 days ago
Find and replace in multifasta or fasta header with perl onliner
You have a fasta file and you want to replace: "|" You are told to replace that by "_" perl -i -p -e "s/\|/_/g" genome.fasta -i = inplace editing -p = loop over lines and print each line (after processing) -e = command line script1629 days ago
Samtools commands for bioinformatician !
...am sal_sej.sam ### viewing bam files (view command) samtool view sal_sej.bam |...m ### identifying genome variants (mpileup command) # -g : output is bcf (binar...". type "bcftools" to see current version and commands ### calling snp and indel...1616 days ago
