Results for "PacBio read correction"
Bio-Scripts
Installing Porechop on Ubuntu !
➜ Tools git:(master) ✗ git clone https://github.com/rrwick/Pore...g build/lib/porechop/nanopore_read.py -> /home/urbe/anaconda3/li...te-packages/porechop/nanopore_read.py to nanopore_read.cpython-3...FASTA/FASTQ of input reads or a directory which will...(default: 100) --min_split_read_size...2158 days ago
Perl script to extract sequence by Ids from multifasta file !
#!/usr/bin/perl -w use strict; my $idsfile = "$ARGV[0]"; my $seqfile = "$ARGV[1]"; my %ids = (); open...while() { chomp; $ids{$_} += 1; } close FILE; local $/ = "\n>"; # read by FA...2148 days ago
- jitendra@jitendra-UNLOCK-INSTALL[SNP] wget https://github.com/br...java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_a...termines the barcode for each read in an Illumina lane. I...Calculate the fraction of reads coming from cross-sample con...etting MAPQ to 0 for unmapped reads...
2128 days ago
- library(vcfR) # Input the files. vcf
2113 days ago
Installing pb-assembly on Linux !
[jnarayan@hmem00 ~]$ module avail ----------------------------...libreadline/6.3-foss-2016a Armadillo/2...# # PacBio(R) tools distributed via Bi...up to the # # quality that PacBio strives for, we make no war...py_0 conda-forge readline...2087 days ago
- #http://www.nupack.org/downloads/source ➜ tools git:(master) ✗...fgets( line, MAXLINE, fp); //read in label ^~~~~~~~~~~~~~...fgets( line, MAXLINE, fp); //read in label ^~~~~~~~~~~~~~...fgets( line, MAXLINE, fp); //read in label ^~~~~~~~~~~~~~..../src/shared concentrations.o ReadComman...
2079 days ago
- #!/bin/bash Plot the coverage script chr=$1 start=$2 end=$3 samtools depth deduped_MA605.bam > deduped_MA605.coverage awk '$1 == $chr {print $0}' deduped_MA60...
2056 days ago
Setting up falconUnzip conda environments for genome assembly !
➜ Analysis_Results conda create -n denovo_asm Solving environment: done...-py_0 conda-forge readline: 7.0-haf1bff...# # PacBio(R) tools distributed via Bi...nda live up to the # # quality that PacBio str...2042 days ago
- Map them agaist reference avaga genome using following codes git clone https://github.com/lh3/bwa.git cd bwa; make bwa index ref.fa bwa mem -x pacbio ref.fa pacbio.fq > aln.sam bwa mem -x ont2d ref.fa ont-2D.fq > aln.sam
1778 days ago
- $ sudo apt install npm Reading package lists... Done Building dependency tree Reading state information... Done...e node-pseudomap node-qs node-read node-read-package-json node-r...tu bionic/universe amd64 node-read all 1.0.7-1 [4,572 B]...ously unselected package node-read. Pre...
1606 days ago
