Installing docker for Bioinformatics on Ubuntu !
...loads$ docker Usage: docker [OPTIONS] COMMAND A self-sufficient runtime for containers Options:...files or directories on a container's filesystem events Get real time events from the server exe...1511 days ago
Commands to install conda in Ubuntu !
...9.03-Linux-x86_64.sh % Total % Received % Xferd Average Speed Time Time Time Current...In particular, Anaconda Distribution contains re-distributable, run-time, shared -library files from...1509 days ago
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1214 days ago
Download minikraken database !
...➜ day3 curl -O ftp://ftp.ccb.jhu.edu/pub/data/kraken2_dbs/old/minikraken2_v2_8GB_201904.tgz % Total % Received % Xferd Average Speed Time Time Time Current...1212 days ago
Commandline for paired end reads simulation with BBMap !
...O=0.0 ADD_ERRORS_FROM_QUALITY=true REPLACE_NOREF=false paired=true read length=250 reads=100000 insert size=400-600 Wrote reads_BBMAP250.fq Time: 5.722 seconds.988 days ago
Print in terminal with python !
#!/usr/bin/env python import time import curses def pbar(window): height, width = window.getmaxyx() for i in range(10): window.addstr(height -1, 0, "[" + ("=" * i) + ">" + (" " * (10 - i )) + "]") window.refresh() time.sleep(0.5) curses.wrapper(pbar)976 days ago
Tadpole is 250x faster than SPADes assembler !
...meters: shave=t Remove dead ends (aka hair). rinse=t Remove bubbles. wash= Set shave and rinse at the same time. maxshavedepth=1 (msd) S...974 days ago
Download desire version of Blast software !
...2.6.0+-x64-linux.tar.gz #Slurm template #!/bin/bash #SBATCH --partition=longjobs #SBATCH --nodes=1 #SBATCH --ntasks-per-node=32 #SBATCH --time=1:00:00 #SBATCH --job-name=v...941 days ago