Changes between Version 10 and Version 11 of SOPs/qc_shortReads

Timestamp:

12/03/13 10:38:59 (11 years ago)

Author:

gbell

Comment:

--

SOPs/qc_shortReads

@@ -39 +39 @@
 }}}
 
+Method 1: Get insert sizes from BAM file
 {{{
    # Using a SAM file (at Unix command prompt)
@@ -54 +55 @@
    dev.off()
 }}}
-{{{
-   # calculate insert size with CollectInsertSizeMetrics function from picard ( http://picard.sourceforge.net )
+
+Method 2: Calculate insert sizes with CollectInsertSizeMetrics function from picard ( http://picard.sourceforge.net )
+{{{
+   # 
    # I=File    Input SAM or BAM file.  Required.
    # O=File    File to write the output to.  Required