In the past I had been using samtools view -b command to extract
multiple chromosomal positions at once from WGS/WXS files. An example is
samtools view -b <bam.file> chr1:1-1000 chr5:1-10000 chr7:1-10000 >
I recently started using a .bed file instead of specifying the regions
on the command line. I notice if I compare extracting the same regions
using both methods the files that I get using the .bed file is
significantly larger. Which method is the accurate method for extracting
Please consider the environment before printing this e-mail
Cleveland Clinic is ranked one of the top hospitals in America by U.S.News & World Report (2012).
Visit us online at http://www.clevelandclinic.org for a complete listing of our services, staff and locations.
Confidentiality Note: This message is intended for use only by the individual or entity to which it is addressed and may contain information that is privileged, confidential, and exempt from disclosure under applicable law. If the reader of this message is not the intended recipient or the employee or agent responsible for delivering the message to the intended recipient, you are hereby notified that any dissemination, distribution or copying of this communication is strictly prohibited. If you have received this communication in error, please contact the sender immediately and destroy the material in its entirety, whether electronic or hard copy.