Results for "Sequencing Data Analysis"
Bio-Scripts
➜ BorisTrinityAssembly /home/urbe/Tools/transrate-1.0.3-linux-x86_64/transrate...embly/transrateSTAT/Trinity/contigs.csv [ INFO] 2018-07-13 14:54:40 : Writing analysis results to assemblies.csv2136 days ago
- # list sample names & download URLs. sample_links = {"ERR458493": "https://osf.io/5da...LES=sample_links.keys() # download yeast rna-seq data from Schurch et al, 2016 stud...wnload_all: input: expand("rnaseq/raw_data/{sa...
1529 days ago
- set -e echo "Running reapr version 1.0.18 pipeline:" echo "/home/urbe/Tools/Reapr_1....adinetaGapFilled.gapfilled.iteration1.fa /home/urbe/DATA/OriginalReads/ANature/GC02756...26.HiSeq2000.FCB.lane1.gcap_dev.R1.fastq /home/urbe/DATA/Ori...
2112 days ago
Perl script to find palindromic pattern !
#!/usr/bin/perl use strict; use warnings; use strict; my %invert; @invert{ qw[ A C G T ] } = qw[ T G C A ];...), substr( $in, $p1-$pals, ($pals+1)*2 ), $p1-$pals; } } __DATA__...2112 days ago
- ...run using Google cloud dataproc commands after the -- will be passed to dataproc --cluster mu...Tools that process sequencing machine data, e.g. Illumina base calls, and detect sequencing level attributes, e.g. adapte...
2088 days ago
- ➜ upgrade_oh_my_zsh Updating Oh My Zsh remote: Counting objects: 484, done. remote: Compressing objects: 100%...emoji/README.md | 6 +- plugins/emoji/emoji-data.txt...
2088 days ago
Installing pb-assembly on Linux !
...ssembly Fetching package metadata ........... Solving package...all bwa Fetching package metadata ............. Solving packag...e currently available SMRT(R) Analysis builds. While # # efforts ha...e currently available SMRT(R) Analysis builds. While # # efforts ha...2047 days ago
- (denovo_asm) [jnarayan@hmem00 ~]$ git clone https://github.com/cdunn2001/git-sym.git fatal: destination path 'gi...-sym.makefile 'greg200k-sv2.2' curl -L https://downloads.pacbcloud.com/public/data/git...
2047 days ago
- #! /usr/bin/Rscript ## Collect arguments args
2017 days ago
CollectGcBiasMetrics.jar will generate a GC bias plot for each contig
samtools index aln-pe.mapped.sorted.bam for i in $(samtools view -H aln-pe.mapped.sorted.bam | awk -F"\t" '/@S...-pe.mapped.sorted.$i.bam; java -Xmx2g -jar $(which CollectGcBiasMetrics.jar) R=data/Cdi...2017 days ago
