Changes between Version 34 and Version 35 of SOPs/chip_seq_peaks

Timestamp:

10/04/16 11:14:46 (8 years ago)

Author:

thiruvil

Comment:

--

SOPs/chip_seq_peaks

@@ -51 +51 @@
   * --keep-dup How should MACS handle duplicate tags at the same location?  The default is to keep just one.  The 'auto' option (recommended for high-coverage samples) has MACS calculate the expected maximum tags at the same location (based on the binomal distribution).
   * For future IDR analysis, use '-p 1e -3' => Set p-value cutoff to 1e-3 (which is more relaxed than the default setting)
+
+  ==== Output format (xls/text file):====
+  * chr name
+  * start pos of peak
+  * end pos of peak
+  * length of peak region
+  * absolute peak summit position
+  * pileup height at peak summit
+  * -log10(pvalue) for the peak summit
+  * fold enrichment
+  * -log10(qvalue) at peak summit
+
 
 ==== MACS14 ====