Skip to content

Commit

Permalink
Added an updates file
Browse files Browse the repository at this point in the history
  • Loading branch information
jigold committed May 8, 2012
1 parent 1f9425d commit c08be7b
Showing 1 changed file with 4 additions and 2 deletions.
6 changes: 4 additions & 2 deletions updates.txt
Expand Up @@ -16,7 +16,9 @@ May 8th, 2012:

2. Set default AutoCall PED file (Version 1) to output A/B alleles rather than A,T,G,C alleles so that the output of all three versions is standard. This also avoids differences in reference strand used when comparing calls across sites. To revert back to outputting A,T,G,C alleles, look at zCall.py and uncomment/comment the specified lines.

3. Updated input GenomeStudio report format to include the chromosome and position in order to avoid using the probe manifest file. The input should now resemble the following:
3. Updated input GenomeStudio report format (Version 2 & 3) to include the chromosome and position in order to avoid using the probe manifest file. The input should now resemble the following:

Name<tab>Chr<tab>Position<tab>Sample1.GType<tab>Sample1.X<tab>Sample1.Y
rs000001<tab>1<tab>900001<tab>NC<tab>0.0000<tab>0.0000
rs000001<tab>1<tab>900001<tab>NC<tab>0.0000<tab>0.0000

This affects the input parameters to convertReportToTPED.py and zCall.py

0 comments on commit c08be7b

Please sign in to comment.