Results for "Scientific writing"
Bio-Scripts
➜ BorisTrinityAssembly /home/urbe/Tools/transrate-1.0.3-linu...arative diagnostics [ INFO] 2018-07-13 14:54:34 : Writing contig metrics for each conti...Trinity/contigs.csv [ INFO] 2018-07-13 14:54:40 : Writing analysis results to assemblie...2121 days ago
Installing Porechop on Ubuntu !
➜ Tools git:(master) ✗ git clone https://github.com/rrwick/Porechop.git Cloni...ning install_egg_info running egg_info creating porechop.egg-info writing porechop.egg-info/PKG-INFO writing dependency_links to porechop....2104 days ago
Bash script to alignment of short reads against reference genome !
bwa mem -t 40 -R '@RG\tID:K12\tSM:K12' \ E.coli_K12_MG1655.fa SRR1770413_1.fastq.gz...sorting the BAM file: sambamba sort SRR1770413.raw.bam --- sort the BAM file, writing it to .sorted.bam. #marking...1557 days ago
Install and set up i-adhore for synteny and wgd analysis ! -- step by step --
#Need to download i-adhore-3.0.01.tar.gz from https://wdicer...01/src/SvgWriter.cpp:24:8: warning: ‘%x’ directive writing 1 byte into a region of size...01/src/SvgWriter.cpp:24:8: warning: ‘%x’ directive writing 1 byte into a region of size...1201 days ago
Parse the NCBI taxonomy database with Perl !
use Bio::DB::Taxonomy; use warnings; my $sps="human"; # Get one from a...am) { print "Try again with correct scientific name\n"; exit;} print "Eurek...am); #foreach (@taxa) {print $_->scientific_name ; print "--";} my @ta...age; foreach (@lineage) {print $_->scienti...1170 days ago
- syntax: $output = open2(\*CHLD_OUT, \*CHLD_IN, 'command arg1 arg2'); It runs a process for both reading and writing and creates a pipe to both ST...
1161 days ago
Commandline for paired end reads simulation with BBMap !
(JitMetaENV) ➜ mixedSample git:(main) ✗ /home/urbe/Tools/bbm...th=250, mininsert=400, maxinsert=600, gaussian] Writing reference. Executing dna.Fas...thread=false, genscaffoldinfo=true, retain, waitforwriting=false, gz=true, maxlen=536670...988 days ago
Tadpole is 250x faster than SPADes assembler !
lege@jit-Lenovo-ideapad-320-15ISK:~/Downloads/MyTools/Vir$ tadpole.sh Written by Bri...ith at least this depth. showstats=t Print assembly statistics after writing contigs. Prefiltering para...974 days ago
- #Create a conda environment. #Install a Python package in the terminal using conda. $ conda create -n myenv $ c...orge - defaults dependencies: - python=3.7 - matplotlib # Core scienti...
959 days ago
