-
Notifications
You must be signed in to change notification settings - Fork 0
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
Query Verification: Peanut Allergy Cohort #104
Comments
CPT codes: Just as an aside -- data from the hospitals will have spotty coverage of CPT codes, which are much more complete in CU Medicine. So the presence of the allergy testing CPT codes in UCHealth data may be very small if any. Not because it wasn't done but because it is captured in professional billing, not hospital billing |
No additional comments on peanut allergy other than above. |
Interesting! Would this be the same case for CHCO and MIMIC? We are not currently using UCHealth data for this project (although I'd love to)! |
Same for CHCO although in the past CHCO did do some physician CPT coding. But I think that's been taken over completely by CU Medicine now. I don't know about MIMIC. You would need to rummage around in their data dictionary. |
Great, it sounds like we can close this issues and wrap this up. Please re-open if you disagree or think that there is more to be done. |
Can this be re-opened? I do not think the inclusion criterial logic is correct unless there is some missing English. Does CASE TYPE 1 require that a patient meet all three inclusion criteria? CASE TYPE 2 clearly has an "OR" for criteria 2, 3, & 4 but it isn't clear from the English if all three criteria for CASE TYPE 1 must be met. If so, then need to change logic. |
Fine to re-open, but I feel confident that we have this correct. Here is the original criteria that was provided: Do you not agree that this is what I have represented with the logic above? |
I’d rewrite the criteria to use indented bullets for the OR to make it clear like it is for Definition 2. Else you have been using ANDs between inclusion criteria bullets in your other definitions.
…________________________________
From: Tiffany J. Callahan <notifications@github.com>
Sent: Sunday, August 11, 2019 12:19:58 PM
To: callahantiff/PheKnowVec <PheKnowVec@noreply.github.com>
Cc: Kahn, Michael <MICHAEL.KAHN@CUANSCHUTZ.EDU>; State change <state_change@noreply.github.com>
Subject: Re: [callahantiff/PheKnowVec] Query Verification: Peanut Allergy Cohort (#104)
Can this be re-opened? I do not think the inclusion criterial logic is correct unless there is some missing English. Does CASE TYPE 1 require that a patient meet all three inclusion criteria? CASE TYPE 2 clearly has an "OR" for criteria 2, 3, & 4 but it isn't clear from the English if all three criteria for CASE TYPE 1 must be met. If so, then need to change logic.
Fine to re-open, but I feel confident that we have this correct. Here is the original criteria that was provided:
[Screen Shot 2019-08-11 at 12 17 00]<https://user-images.githubusercontent.com/8030363/62837901-43007180-bc32-11e9-97ae-d0009aed86b9.png>
Do you not agree that this is what I have represented with the logic above?
—
You are receiving this because you modified the open/close state.
Reply to this email directly, view it on GitHub<#104?email_source=notifications&email_token=AA557TSDW5MONSKMSFQ4DLTQEBJ45A5CNFSM4IF3NOCKYY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD4BF7RY#issuecomment-520249287>, or mute the thread<https://github.com/notifications/unsubscribe-auth/AA557TQ4B6X4NEEFAMJU2NLQEBJ45ANCNFSM4IF3NOCA>.
|
I see, but that gets kind of confusing too (I had initially tried to apply something like this). Do you not think that the table is helpful? Cohort Logic Table
Case Criteria:
CASE TYPE 2
I could also add mathematical notation: CASE_TYPE1 = all_case_inclusion_criteria_1 ∩ (mx_case_inclusion_criteria_1 ∪ px_inclusion_criteria_1) CASE_TYPE2 = all_case_inclusion_criteria_1 ∩ (px_inclusion_criteria_2 ∪ px_inclusion_criteria_3 ∪ px_inclusion_criteria_4) |
TODO FOR ME:
|
@mgkahn - Can you please help me verify the query to select Peanut Allergy patients?
COHORT CRITERIA
Case Criteria:
CASE TYPE 1
CASE TYPE 2
Control Criteria:
Cohort Logic Table
NOTE.
{database}
withCHCO_DeID_Oct2018
{code_set_group}
Query can be found here and is also included below:
The text was updated successfully, but these errors were encountered: