Results for "read depth"
Bio-Scripts
(JitMetaENV) ➜ test_phase_assebly conda install -c bioconda bwise Collecting package...me/urbe/JitSimuStudy/test_phase_assebly directory already exists, BWISE will use it....dy/test_phase_assebly usage: bwise [-h] [-x PAIRED_READF...987 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 paired interleav...s/bbmap/current/ align2.RandomReads3 build=1 ref=mixed.fa out=re...3 [build=1, ref=mixed.fa, out=reads_BBMAP250.fq, paired, interle...len=(0-0) genome=1 PERFECT_READ_...987 days ago
Python script to read FASTA and FASTQ file !
# !/usr/bin/env python3 # -*- coding: utf-8 -*- from pysam import FastxFile def read_...974 days ago
Tadpole is 250x faster than SPADes assembler !
...r the primary kmer counts. threads=X Spawn X hashing t...o of 1st to 2nd-greatest path depth at low depth. branchlower=3...meo=t (markerrorreadsonly) Only mark bad bases in r...eans they have no kmers above depth 1 (2 for paired...973 days ago
Inreractive SCP / File transfer !
#!/bin/bash #next line prints hearer of script echo "Interactive Script...value to variable with name desthost read -p "Destination Server Name :...value to variable with name destpath read -p "Destination Path : " dest...value to variable with name filename read...947 days ago
- $ sudo apt install art-nextgen-simulation-tools [sudo] password for neelam: Reading package lists... Done Building dependency tree Reading state information... Done...ly unselected package libgslcblas0:amd64. (Readi...
662 days ago
Perl script to read the next line of a file !
my $line = ; while(1) { # keep looping until I say so my $nextLine = ; if ($line =~ m/>/ || !defined $nextLine) { ### Do the stuff } ### Do any other stuff; last unless defined $nextLine; $line = $nextLine; }563 days ago
Perl script to find inverted repeats !
#!/usr/bin/perl use strict; use warnings; use Bio::SeqIO; use Bio::Tools::Run::RepeatMasker; my $genome_file = "genome.fasta"; # read...422 days ago
Perl script for chi-squared test !
#!/usr/bin/perl # # chidi.pl # # A script to perform a chi-squared test of the di...################################################ # Read sequence file 1 ############...################################################ # Read...409 days ago
- #!/usr/bin/env Rscript library(RCircos) # usage: Rscript make_circos.r # parse args args = commandArgs(trailingOnly=TRUE) sv.file
297 days ago
