On Thu, May 13, 2010 at 10:37 AM, Young-Jin Cho <span dir="ltr"><<a href="mailto:yjcho@brandeis.edu">yjcho@brandeis.edu</a>></span> wrote:<br><div class="gmail_quote"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
Dear Phenix users,<br>
This might be trivial questions though...<br>
1. When you did phenix.model_vs_data, I see the discrepancy between R/Rfree.<br>
'After applying resolution and sigma cutoffs' seems more accurate one though, could someone explain why it has such-even small though- discrepancy?<br></blockquote><div><br></div><div>Not sure I understand the question - what kind of discrepancy? R-free should always be a little higher than R-work...</div>
<div><br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
2. Also, when you do phenix.polygon, I used to seeing many branches from old version. With my current version(phenix-1.6.1-343), I normally see only 5 branches. Is there any reasons for that?<br></blockquote><div><br></div>
<div>Yes, we decided that the additional statistics were potentially too confusing and less appropriate as global measures of structure quality (in particular, k_sol should never have been included). You can still add more if you want by clicking the button labeled "Select statistics for display".</div>
<div><br></div><div>PS. You should update to the latest official release - 1.6.1-343 was an unofficial nightly build. (Or better yet, just use the latest nightly build, which has many improvements over 1.6.1.)</div><div>
<br></div><div>-Nat </div></div>