built in function for computing overlap in Python
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is there a built in function to compute the overlap between two discrete intervals, e.g. the overlap between [10, 15] and [20, 38]? In that case the overlap is 0. If it's [10, 20], [15, 20], the overlap is 5.
You can use max and min:
>>> def getOverlap(a, b): ... return max(0, min(a, b) - max(a, b)) >>> getOverlap([10, 25], [20, 38]) 5 >>> getOverlap([10, 15], [20, 38]) 0
Check if any two intervals overlap among a given set of intervals , Method 1. A better solution is to Use Sorting. Following is complete algorithm. 1) Sort all Calculating the prefix Sum. aux[i] += aux[i - 1];. // Overlap. if (aux[i] > 1). The isinstance() built-in function is recommended for testing the type of an object, because it takes subclasses into account. With three arguments, return a new type object. This is essentially a dynamic form of the class statement.
Check out pyinterval http://code.google.com/p/pyinterval/
import interval x=interval.interval[10, 15] y=interval.interval[20, 38] z=interval.interval[12,18] print(x & y) # interval() print(x & z) # interval([12.0, 15.0])
Intersection() function Python, It contains well written, well thought and well explained computer science and Intersection of two given sets is the largest set which contains all the elements that are common to both the sets. The intersection() function returns a set, which has the intersection of all sets(set1, set2, set3…) Python-Built-in-functions. Python Built-In Functions. 1. abs() The abs() is one of the most popular Python built-in functions, which returns the absolute value of a number. A negative value’s absolute is that value is positive.
Here is a good function from Aaron Quinlan's chrom_sweep, modified for your interval representation. It returns the number of bp of overlap if they do overlap, otherwise it returns the distance as a negative int.
def overlaps(a, b): """ Return the amount of overlap, in bp between a and b. If >0, the number of bp of overlap If 0, they are book-ended. If <0, the distance in bp between them """ return min(a, b) - max(a, b)
python-intervals · PyPI, This library provides data structure and operations for intervals in Python 2.7+ and Python 3.4+. python-intervals has been renamed to portion :. Evaluates and executes an expression. Executes the specified code (or object) Use a filter function to exclude items in an iterable object. Returns a floating point number. Formats a specified value. Returns a frozenset object. Returns the value of the specified attribute (property or method) Returns the current global symbol table as a dictionary.
Just wrote this:
def overlap(interval1, interval2): """ Given [0, 4] and [1, 10] returns [1, 4] """ if interval2 <= interval1 <= interval2: start = interval1 elif interval1 <= interval2 <= interval1: start = interval2 else: raise Exception("Intervals are not overlapping") if interval2 <= interval1 <= interval2: end = interval1 elif interval1 <= interval2 <= interval1: end = interval2 else: raise Exception("Intervals are not overlapping") return (start, end) def percentage_overlap(interval1, interval2): """ Given [0, 4] and [1, 10] returns 0.75 """ try: overlap = _overlap(interval1, interval2) except Exception: return 0.0 return (overlap - overlap) / (interval1 - interval1)
Python Scripting for Computational Science, It extends ScientificPython significantly, but also has some overlap. or get the function signatures and doc strings formatted by pydoc or the help function in the Python shell. Help Functionality. SciPy has a nice built-in help functionality. The isinstance() built-in function is recommended for testing the type of an object, because it takes subclasses into account. With three arguments, return a new type object. This is essentially a dynamic form of the class statement.
Introduction to Computation and Programming Using Python: With , confidence interval, overlapping, 281 confidence level, 261 correctness vs. 195 substring, 19 successive approximation, 38, 309 sum built-in function, 132 Intersection() function Python Intersection of two given sets is the largest set which contains all the elements that are common to both the sets. Intersection of two given sets A and B is a set which consists of all the elements which are common to both A and B.
intervaltree · PyPI, Editable interval tree data structure for Python 2 and 3. Build status badge Queries may be by point, by range overlap, or by range envelopment. The search(begin, end, strict) method no longer exists. Pingdom Monitoring Google Object Storage and Download Analytics Sentry Error logging AWS Cloud computing 2. Built-in Functions ¶ The Python interpreter has a number of functions and types built into it that are always available. They are listed here in alphabetical order. Built-in Functions. staticmethod () Return the absolute value of a number. The argument may be an integer or a floating point number. If the argument is a complex number, its
2. Built-in Functions, The Python interpreter has a number of functions and types built into it that are Two objects with non-overlapping lifetimes may have the same id() value. C:\pythontest>python testavg.py The average is 31.86 Summary: The formula to calculate average is done by calculating the sum of the numbers in the list divided by the count of numbers in the list. The average of a list can be done in many ways i.e . Python Average by using the loop; By using sum() and len() built-in functions from python
- Do you mean that if you want the overlap between [10,25] and [20,38], that the result should be [20,25]?
- What do you mean overlap? Please give an example of the expected result.
- there is overlap between [10,15] and [20,38]?
- why is the overlap of [10, 20] and [15, 20] 5 and not 6? there are 6 values that overlap in those two intervals (15, 16, 17, 18, 19, and 20). if they are exclusive intervals rather than inclusive, then there are 4 overlapping values (16, 17, 18, and 19).
- @Marc if one wants [20,25] what is the best way to do it? please point me to any similar questions. I'm trying to achieve exactly this ^
- unless the intervals are implied to be exclusive on the first value and inclusive on the second (or something like that...), this would need a
+ 1to the subtraction.
- thanks for the answer, how would I go about finding the
percentage overlapbetween those ranges?
- @DJ_Stuffy_K for percentage overlap, see mine answer below. Hope it helps.
- +1 Because I didn't know about that module, though it might be overkill if he just needs it for this one calculation.
- The OP was looking for "a built in function".
- I think although the documentation is the same, the module has changed slightly. The
intervalobject does not have any attribute named
- @T-1000: When you
intervalrefers to the module.
interval.intervalrefers to the
intervalclass. In contrast, when you use
from interval import interval, then
intervalrefers to the class. In neither case is there any reference to an
- @T-1000: Yes, the procedure I used to install it a while back no longer works. Per the instructions here you might try
easy_install pyinterval. Or, I believe you'll need to install crlibm, and then download the tar file from the same page and try
python setup.py install.
- This seems to be the same as Mark Byers answer from 8 years ago, except that I don't know what bp means (and I would say "adjacent" instead of "book ended").
- No, his is less featureful :)