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Microplate library for parsing wet lab data.
/**
* Licensed to the Apache Software Foundation (ASF) under one
* or more contributor license agreements. See the NOTICE file
* distributed with this work for additional information
* regarding copyright ownership. The ASF licenses this file
* to you under the Apache License, Version 2.0 (the
* "License"); you may not use this file except in compliance
* with the License. You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing,
* software distributed under the License is distributed on an
* "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
* KIND, either express or implied. See the License for the
* specific language governing permissions and limitations
* under the License.
*/
/* -------------------------------- Package -------------------------------- */
package com.github.jessemull.microflex.doubleflex.stat;
/* ----------------------------- Dependencies ------------------------------ */
import java.util.Collections;
import java.util.List;
/**
* This class calculates the quartile deviation of double plate stacks, plates,
* wells and well sets.
*
*
*
* Statistical operations can be performed on stacks, plates, sets and wells using
* standard or aggregated functions. Standard functions calculate the desired
* statistic for each well in the stack, plate or set. Aggregated functions aggregate
* the values from all the wells in the stack, plate or set and perform the statistical
* operation on the aggregated values. Both standard and aggregated functions can
* be performed on a subset of data within the stack, plate, set or well.
*
*
*
* The methods within the MicroFlex library are meant to be flexible and the
* descriptive statistic object supports operations using a single stack, plate,
* set or well as well as collections and arrays of stacks, plates, sets or wells.
*
*
* Operation
* Beginning
Index
* Length of
Subset
* Input/Output
*
*
*
*
* Standard
*
*
*
*
*
*
* +/-
*
*
*
*
*
*
* +/-
*
*
*
*
*
*
* Accepts a single well, set, plate or stack as input
*
*
* Calculates the statistic for each well in a well, set, plate or stack
*
*
*
*
*
*
*
*
* Aggregated
*
*
*
*
*
*
* +/-
*
*
*
*
*
*
* +/-
*
*
*
*
*
*
* Accepts a single well/set/plate/stack or a collection/array of wells/sets/plates/stacks as input
*
*
* Aggregates the data from all the wells in a well/set/plate/stack and calculates the statistic using the aggregated data
*
*
*
*
*
*
* @author Jesse L. Mull
* @update Updated Oct 18, 2016
* @address http://www.jessemull.com
* @email [email protected]
*/
public class QuartileDeviationDouble extends DescriptiveStatisticDouble {
/**
* Calculates the quartile deviation.
* @param List the list
* @return the result
*/
public double calculate(List list) {
Collections.sort(list);
if(list.size() < 2) {
return 0;
}
int index = list.size() / 2;
List listQ1 = list.subList(0, index);
int lowQ1 = (int) Math.floor((listQ1.size() - 1.0) / 2.0);
int highQ1 = (int) Math.ceil((listQ1.size() - 1.0) / 2.0);
double q1 = (listQ1.get(lowQ1) + listQ1.get(highQ1)) / 2;
if(list.size() % 2 != 0) {
index++;
}
List listQ3 = list.subList(index, list.size());
int lowQ3 = (int) Math.floor((listQ3.size() - 1.0) / 2.0);
int highQ3 = (int) Math.ceil((listQ3.size() - 1.0) / 2.0);
double q3 = (listQ3.get(lowQ3) + listQ3.get(highQ3)) / 2;
return (q3 - q1) / 2;
}
/**
* Calculates the quartile deviation of the values between the beginning and
* ending indices.
* @param List the list
* @param int beginning index of subset
* @param int length of subset
* @return the result
*/
public double calculate(List list, int begin, int length) {
return calculate(list.subList(begin, begin + length));
}
}
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