Other functions - ndobb/clinical-trials-seq2seq-annotation GitHub Wiki

• insur()
• clin()
• hosp()
• res()
• risk()
• unit()

insur()

insur() represent a patient's insurance status.

Arguments -

• Quoted Text, e.g., insur("medicare"), or
• No arguments.

Example -

'EXC'

'-  no medication insurance'

'-  neg() medication insur("insurance")'

neg(
    insur("insurance")
)

clin()

clin() a clinic and is always within an .loc() method.

Arguments -

• Quoted Text, e.g., clin("Adult Medicine Clinic"), or
• No arguments.

Example -

'INC'

'-  patients in different age groups and both sex referred from orthopedic outpatient 
    clinic with chronic ankle pain and suspected clinically to have impingement syndrome .'

'-  patients in different age groups and both sex enc(REFERRAL) from 
    enc(clin("orthopedic outpatient clinic")) with chronic() obs("ankle pain") and possible() 
    clinically to have cond("impingement syndrome") .'

enc(REFERRAL)
    .loc(
        clin("orthopedic outpatient clinic")
    )
    .for(
        obs("ankle pain")
            .chronic(),
        cond("impingement syndrome")
            .possible()
    )

hosp()

hosp() a hospital and is always within an .loc() method.

Arguments -

• Quoted Text, e.g., hosp("acute care hospitals"), or
• No arguments.

Example -

'INC'

'-  ( 4 ) having routine prenatal visits and plan to have the birth in the 
    medical center'

'-  ( 4 ) eq(temporal_per(PRESENT)) routine mod("prenatal") enc(OUTPATIENT) 
    and eq(temporal_per(FUTURE)) to have the birth() in the loc(hosp("medical center"))'

intersect(
    enc(OUTPATIENT)
        .mod("prenatal")
        .temporality(
            eq(temporal_per(PRESENT))
        ), 
    birth()
        .temporality(
            eq(temporal_per(FUTURE))
        )
        .loc(
            hosp("medical center")
        )
)

res()

res() refers to a residence and is always within an .loc() method.

Arguments -

• Quoted Text, e.g., res("Germany")

Example -

'INC'

'-  patients recipients in France from 2008 to 2015 of a first kidney transplant'

'-  patients recipients in loc(res("France")) from eq(val("2008"), op(BETWEEN), val("2015")) 
    of a eq(temporal_rec(FIRST_TIME)) mod("kidney") proc("transplant")

proc("transplant")
        .loc(
            res("France")
        )
        .temporality(
            eq(val("2008"), op(BETWEEN), val("2015"))
        )
        .temporality(
            eq(temporal_rec(FIRST_TIME))
        )
        .mod("kidney")

risk()

risk() refers to a patient's risk of having a given cond() or other function.

Arguments -

• A function (typically a cond()) for which patients are at risk.

Example -

'INC'

'3.  Any patient who is high risk for SOS irrespective of conditioning regimen :'

'3.  Any patient who is pol(HIGH) risk() for cond("SOS") irrespective of conditioning regimen :'

risk(
    cond("SOS")
)
.pol(HIGH)

unit()

unit() a unit or department within a hospital and is always within an .loc() method.

Arguments -

• Quoted Text, e.g., unit("trauma department"), or
• No arguments.

Example -

'INC'

'adult patients ( age 18 and above ) who admitted to burn unit 
 during sampling period'

'adult() patients ( eq(op(GTEQ),val("18")) ) who enc(INPATIENT) 
 to loc(unit("burn unit")) during sampling period'

intersect(
    adult()
        .equiv(
            age().num_filter(eq(op(GTEQ), val("18")))
        ),
    enc(INPATIENT)
        .loc(
            unit("burn unit")
        )
)