On Thu, May 13, 2010 at 10:37 AM, Young-Jin Cho
Dear Phenix users, This might be trivial questions though... 1. When you did phenix.model_vs_data, I see the discrepancy between R/Rfree. 'After applying resolution and sigma cutoffs' seems more accurate one though, could someone explain why it has such-even small though- discrepancy?
Not sure I understand the question - what kind of discrepancy? R-free should always be a little higher than R-work... 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?
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". 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.) -Nat