Hi, When I use BWA alignment, FASTQ file can't be detected. What reason cause it? The attached file contains figure from galaxy, you will see I have good fastq file which can be reported by FastQC. Thanks Min Xiong, Ph.D. Post-doctoral Fellow Shui Q. Ye Lab Group Division of Experimental and Translational Genetics Department of Pediatrics Children's Mercy Hospital 2401 Gillham Road Kansas City, MO 64108 ________________________________ Electronic mail from Children's Mercy Hospitals and Clinics. This communication is intended only for the use of the addressee. It may contain information that is privileged or confidential under applicable law. If you are not the intended recipient or the agent of the recipient, you are hereby notified that any dissemination, copy or disclosure of this communication is strictly prohibited. If you have received this communication in error, please immediately forward the message to Children's Mercy Hospital's Information Security Officer via return electronic mail at informationsecurityofficer@cmh.edu and expunge this communication without making any copies. Thank you for your cooperation.