Results for "Genome Size"
Bio-Scripts
#!/bin/bash #set the path export PATH=$PATH:/home/urbe/Tools/augustus-3.2.3/bin exp...canuCorrect_sspaceLong/GRAAL_Haploid/adineta_p_lvl6/genome_CORRECTED2.fasta -c 30 -l metazoa_odb9 -o GRAALHaploid_BUSCO -m geno...2140 days ago
Perl subroutine to read genome/reads fasta file !
sub readSeqFromFasta{ my $file = $_[0]; my (%map,$id,$seq); open(IN,$file) or die("Cannot open file for reading $file:$!\n"); while(){ chomp; if($_ =~ /^...2136 days ago
- ➜ bin git:(master) ✗ ./fastq-dump --help Usage: ./fastq-dump [options] [...]...al-filter Filter used in early 1000 Genomes data: no...lter-1 Filter used in current 1000 Geno...
2129 days ago
Install Parrot Virtual Machine !
#Parrot is a virtual machine designed to efficiently...rs................................done. auto::sizes - Determine some sizes................................min-threshold=KB --gc-nursery-size=percent of sysmem size of ge...1540 days ago
- ➜ Tools git:(master) ✗ git clone https:/...ing for stddef.h - found -- Check size of off64_t -- Check size of off64_t - done -- Looking...re] if ( numBytesWritten != (sizeof(offsetCount) + linearOffset...r, "Allocationg: %llu\n", maxLen * sizeof(MatrixElement));...
2101 days ago
- ...thin a bam. CollectInsertSizeMetrics (Picard) Collect metrics about the insert size distribution of a paired-end li...Collect whole genome sequencing-related metrics....in a reference NonNFastaSize (Picard)...
2078 days ago
Generates a genome coverage plot with R
library(CoverageView) ##draw a coverage plot for a test case BAM file #get a BAM test file treatBAMfile2058 days ago
Generate simulated polyploid genome !
#Generate 3% divergence msbar -point 4 -count 16558 toy.fasta > toyheterozygous3percent.fasta #Cat both files cat toy.fasta toymutated3percent.fasta > toyhetero...2055 days ago
Installing Platypus on Ubuntu !
(py27) ➜ Tools git:(master) ✗ git clone https://github.com/andyrimmer/Platypus.git...s static but used in inline function ‘foundmatch’ which is not static if (size < displacement + min(MIN_PART...2022 days ago
Setting up falconUnzip conda environments for genome assembly !
➜ Analysis_Results conda create -n denovo_asm Solving environment: done ## Package Plan ## environment location: /home/urbe/anaconda3/envs/denovo_asm Pr...1992 days ago
