Results for "Genome STRiP"
Bio-Scripts
Create random 2 translocations in genome !
(base) ➜ dupStudy git:(master) ✗ perl ../simuG.pl -refseq simuINV.simseq.genome.fa -translocation_count 2 -prefix simuTRANS [Sun Jan 10 17:12:58 2021] Starting simuG .. [Sun Jan 10...1212 days ago
Perl script to run awk inside perl
#!/usr/local/bin/perl eval 'exec /usr/local/bin/perl -S $0 ${1+"$@"}' if $running_u...ld separator $\ = "\n"; # set output record separator while () { chomp; # strip record separator @Fld = spli...1164 days ago
- vik@vik-Lenovo-ideapad-320-15ISK:~/D...bs debhelper dh-autoreconf dh-strip-nondeterminism dh-translation...ntu bionic/main amd64 libfile-stripnondeterminism-perl all 0.040-...ly unselected package libfile-stripnondeterminism-perl. Preparin...ntu2) ... Setting up libfile-stripnondeterminism-perl (0.040-1.1...
1055 days ago
Commandline for paired end reads simulation with BBMap !
(JitMetaENV) ➜ mixedSample git:(main) ✗ /home/urbe/Tools/bbmap/randomreads.sh ref=mixed.fa out=reads_BBMAP250.fq p...ax=0, len=(0-0) subRate=0.0, max=0, len=(0-0) nRate =0.0, max=0, len=(0-0) genom...991 days ago
Tadpole is 250x faster than SPADes assembler !
lege@jit-Lenovo-ideapad-320-15ISK:~/Downloads/MyTools/Vir$ tadpole.sh...ommended that mce=1 for low-depth metagenomes. mincountretain=0 (mincr...may yield more accurate genome size estimation. contigpasse...but they are very slow for large metagenom...977 days ago
- #Create a conda environment. #Install a Python package in the terminal using conda. $ conda create -n myenv...env update -f environment.yml #Adding a Package to your YAML File name: genom...
962 days ago
Installing Covid19 Environment !
(base) vikas@vikas-Lenovo-ideapad-320-15ISK:~/vinodLab/Genepi$ conda env create -f covid19-environment.yml Collect...tructural variants detection) * SILVA 16S rRNA database (needed for reference genom...924 days ago
Bash script to simulate a genome !
# Reference https://github.com/chhylp123/hifiasm/issues/33 # Use Drosophila melongast...elbers/test/fly2 wget https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/003/401/745/GCA_0034...0174v1_genomic.fna_upper.diploid.fasta.log.txt # genom...919 days ago
Bash script to split multifasta file !
#Using awk, we can easily split a file (multi.fa) into chunks of size N (here, N=500), by using the fol...;} { print >> file; }' < multi.fasta #Another great solution is genome tools (gt), which you can find here: http://genom...824 days ago
Install Varscan on Ubuntu / Linux !
#Varscan is a java program designed to call variants in sequencing data. It was developed at the Genom...824 days ago
