Results for "fragment 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...1207 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...1203 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://wdice...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,...1203 days ago
Commandline for paired end reads simulation with BBMap !
(JitMetaENV) ➜ mixedSample git:(main) ✗ /home/urbe/Tools/bbmap/randomreads.sh ref=mixe...=true REPLACE_NOREF=false paired=true read length=250 reads=100000 insert size=400-600 Wrote reads_BBMAP250...990 days ago
Tadpole is 250x faster than SPADes assembler !
lege@jit-Lenovo-ideapad-320-15ISK:~/Downloads/MyTools/Vir$ t...2 Number of hashes for prefilter. prefiltersize=0.2 (pff) Fraction of memor...may yield more accurate genome size estimation. contigpasses=16...976 days ago
- blastpgp arguments: -d Database [Strin...t = stdin -A Multiple Hits window size (zero for single hit algorith...start [File In] Optional -W Word size, default if zero [Integer]...e search space (use zero for the real size) [Real] default = 0 -...
950 days ago
Bash script to simulate a genome !
# Reference https://github.com/chhylp123/hifiasm/issues/33 # Use Drosophila melongas...CA_003401745.1_ASM340174v1_genomic.fna_upper.diploid.fasta.log.txt # genome size bgzip -@75 -cd GCA_003401745...917 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 following o...file; }' < multi.fa #OR awk -v chunksize=$(grep ">" multi.fasta -c) 'B...ize=int(chunksize/10)+1 } /^>/ {if(n%chunksize==0){file=sprintf("chunk%d.fa"...823 days ago
- #!/usr/bin/env Rscript library(RCircos) # usage: Rscript make_circos.r # parse args args = commandArgs(trailingOnly=TRUE) sv.file
299 days ago
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