Changes

From Genome Analysis Wiki
Jump to navigationJump to search

SeqShop: Ancestry On Your Own Genome, December 2014 (view source)

Revision as of 23:26, 6 December 2014

136 bytes removed ,  23:26, 6 December 2014
→‎Setup
Line 2: Line 2:     
== Setup ==
 
== Setup ==
−
Set these values. If you used a different path for any of these, please update here. Also, be sure to specify your sample name instead of Sample_XXXXX
+
''If you were sequenced, set these values:''
 +
export SAMPLE=Sample*
 +
  source /net/seqshop-server/home/mktrost/seqshop/setupSS.txt
   −
  source /home/mktrost/seqshop/setup.2x.txt
+
''If you were sequenced, set these values:''
−
export SAMPLE=Sample_XXXXX
+
export SAMPLE=NA12878
 +
  source /net/seqshop-server/home/mktrost/seqshop/setupSS.txt
   −
  −
OUT needs to point to where your alignment output went, so if your output is not ~/personal/output, please set OUT appropriately:
  −
export OUT=~/personal/YOUR_OUTPUT_DIR
   
After setting this, also do
 
After setting this, also do
 
  mkdir -p $OUT/ancestry
 
  mkdir -p $OUT/ancestry
Retrieved from "http://genome.sph.umich.edu/wiki/Special:MobileDiff/12128"

Navigation menu