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More accurate auto annotations with regular expression #64

Closed HasanGokce closed 3 years ago

HasanGokce commented 3 years ago

Issue type: task Parent issue: #50

Problem

For example, we want to annotate word "organ". Default find() method cannot be used for this sentence. Because we don't want to create an annotation for word organ inside of word "organization".

Solution

This regular expression might be used a solution, and it can be improved for future cases:

pattern = rf'\b(?!>){label}\b(?!<)'

    for match in re.finditer(pattern, text, re.IGNORECASE):
        # number of character to cut from left of the match
        num_character = 20

        # match start and end position
        s = match.start()
        e = match.end()
        print ('String match "%s" at %d:%d' % (text[s:e], s, e))


## Source
* https://stackoverflow.com/questions/60925649/regex-look-ahead-behind-with-word-boundary
* https://regex101.com/r/vY3pY3/1
* https://stackoverflow.com/questions/21063742/greater-than-and-less-than-symbol-in-regular-expressions
* https://www.tutorialspoint.com/How-do-we-use-re-finditer-method-in-Python-regular-expression
HasanGokce commented 3 years ago 
find_keyword executed for assay
find_keyword executed for specimen
find_keyword executed for gene
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HasanGokce commented 3 years ago
HasanGokce commented 3 years ago

String: Effect of COVID-19 on organ. Health organization

Plural form of the word can be found with this regular expression:

HasanGokce commented 3 years ago