Skip to content
Skip to breadcrumbs
Skip to header menu
Skip to action menu
Skip to quick search

Search

Site Home

Breadcrumbs

Page History

Versions Compared

Old Version 15

changes.mady.by.user Jamie Cheong

Saved on Jan 28, 2022

compared with

New Version Current

changes.mady.by.user Jamie Cheong

Saved on Jan 28, 2022

Key

This line was added.
This line was removed.
Formatting was changed.

...

Code Block

language	bash

$ singularity exec tools.sif bwa
Program: bwa (alignment via Burrows-Wheeler transformation)
Version: 0.7.17-r1188

$ singularity exec ./tools.sif bwa mem testbwa/ref.fa testbwa/*/*.fastq.gz > output/Mapped_reads.bwa.sam

# to submit to Juno cluster
$ bsub singularity exec ./tools.sif bwa mem testbwa/ref.fa testbwa/*/*.fastq.gz > output/Mapped_reads.bwa.sam
Or 
bsub < bwabsub.sh

Demonstration (click to download and view):

View file

name	submitBWA.mov
height	400250

Additional Help

For a comprehensive overview of Singularity, please refer to the Singularity user guide here. The help menu will provide the most up-to-date help as shown below:

...