Results for "Genome Size"
Bio-Scripts
(JitMetaENV) ➜ wgd git:(master) pip install --user ERROR...ed wheel for wgd: filename=wgd-1.2-py3-none-any.whl size=75291 sha256=ebd89070a2b46f55...el for bokeh: filename=bokeh-1.4.0-py3-none-any.whl size=23689200 sha256=5109a280afc85...1222 days ago
Set up WGD environment using conda !
#Wgd cannot be installed directly with bioconda at present...ed wheel for wgd: filename=wgd-1.2-py3-none-any.whl size=75291 sha256=56a7a19b3f4e5358...el for bokeh: filename=bokeh-1.4.0-py3-none-any.whl size=23689200 sha256=7daa115fd1b05...1217 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://wdi...ing: ‘%x’ directive writing 1 byte into a region of size between 0 and 6 [-Wformat-ove...output between 8 and 26 bytes into a destination of size 8 __bos (__s), __fmt,...1217 days ago
Commandline for paired end reads simulation with BBMap !
...en=(0-0) subRate=0.0, max=0, len=(0-0) nRate =0.0, max=0, len=(0-0) genome=1 PERFECT_READ_RATIO=0.0 AD...REPLACE_NOREF=false paired=true read length=250 reads=100000 insert size=400-600 Wrote reads_BBMAP250...1004 days ago
Tadpole is 250x faster than SPADes assembler !
...f hashes for prefilter. prefiltersize=0.2 (pff) Fraction of memory...nded that mce=1 for low-depth metagenomes. mincountretain=0 (mincr...may yield more accurate genome size estimation. contigpasses=16...they are very slow for large metagenomes. Overlap parameters (fo...990 days ago
- #Create a conda environment. #Install a Python package in the terminal using conda. $ conda create -n myenv $...a env update -f environment.yml #Adding a Package to your YAML File name: geno...
975 days ago
- blastpgp arguments: -d Database [Stri...lt = stdin -A Multiple Hits window size (zero for single hit algorith...estart [File In] Optional -W Word size, default if zero [Integer]...he search space (use zero for the real size) [Real] default = 0 -...
964 days ago
Installing Covid19 Environment !
(base) vikas@vikas-Lenovo-ideapad-320-15ISK:~/vinodLab/Genepi$ conda env create -f covid19-environment.yml Collecti...structural variants detection) * SILVA 16S rRNA database (needed for reference geno...937 days ago
Bash script to simulate a genome !
...bly cd /genetics/elbers/test/fly2 wget https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/003/401/745/GCA_0034..._003401745.1_ASM340174v1_genomic.fna_upper.diploid.fasta.log.txt # genome size bgzip -@75 -cd GCA_003401745...932 days ago
Bash script to split multifasta file !
...ile (multi.fa) into chunks of size N (here, N=500), by using the f...ulti.fa #OR awk -v chunksize=$(grep ">" multi.fasta -c) 'BEG...#Another great solution is genome tools (gt), which you can find here: http://genometools.org/, which has the fo...837 days ago
