I have a very large dataset (~55,000 datapoints) for chicken crops. Chickens are grown over ~35 day period. The dataset covers 10 sheds of ~20,000 chickens each. In the sheds are weighing platforms and as chickens step on them they send the weight recorded to a server. They are sending continuously from day 0 to the final day.
The variables I have are: House (as a number, House 1 up to House 10), Weight (measured in grams, to 5 decimal points) and Day (measured as a number between two integers, e.g. 12 noon on day 0 might be 0.5 in the day, whereas day 23.3 suggests a third of the way through day 23 (8AM). But as this data is sent continuously the numbers can be very precise).
I want to construct either a Time Series Regression model or an ML model so that if I take a new crop, as data is sent by the sensors, the model can make a prediction for what the end weight will be. Then as that crop cycle finishes it can be added to the training data and repeat.
Currently I'm using this very simple Weight VS Time model, but eventually would include things like temperature, water and food consumption, humidity etc.
I've run regression analyses on the data sets to determine the relationship between time and weight (it's likely quadratic, see image attached) and tried using randomForrest in R to create a model. The test model seemed to work well in regards to the MAPE value being similar to the training value, but that was by taking out one house and using that as the test.
Potentially what I've tried so far is completely the wrong methodology but this is a new area so I'm really not sure of the best approach.
Related
Here is a short description of the problem I am trying to solve: I have test data for multiple variables (weight, thickness, absorption, etc.) that are taken at varying intervals over time - no set schedule, sometimes a test a day, sometimes days might go between tests. I want to detect trends in each of these and alert stake holders when any parameter is trending up/down more than a certain amount. I first did a linear model between each variable's raw data and test time (I converted the test time to days or weeks since a fixed date) and create a table with slopes for each variable - so the stake holders can view one table for all variables and quickly see if any of them is raising concern. The issue was that the data for most variables is very noisy. Someone suggested using time series functions, separating noise and seasonality from the trends, and studying the trend component for a cleaner analysis. I started to look into this and see a couple concerns/questions already:
Time series analysis seems to require specifying a frequency - how do you handle this if your test data is not taken at regular intervals
If one gets over the issue in #1 above, decomposes the data, and gets the trend separated out (ie. take out particularly the random variation/noise), how would you then get a slope metric from that? Namely, if I wanted to then fit a linear model to the trend component of the raw data (after decomposing), what would be the x (independent) variable? Is there a way to connect the trend component of the ts-decompose function with the original data's x-axis data (in this case the actual test date/times, say converted to weeks or days from a fixed date)?
Finally, is there a better way of accomplishing what I explained above? I am only looking for general trends over time - say over 3 months of data, not day to day trends.
Time series are generally used to see if previous observations of a variable have influence on future observations. You would model under the assumption that the previous observations are able to predict the future observations. That is the reason for that most (not all) time series models require evenly spaced instances of training data. If your data is not only very noisy, but also not collected on a regular basis, then you should seriously consider if time series is the appropriate choice of modelling.
Time series analysis seems to require specifying a frequency - how do you handle this if your test data is not taken at regular intervals.
What you can do, is creating an aggregate by increasing the time bucket (shift from daily data to a weekly average for instance) such that every unit of time has an instance of training data. Following your final comment, you could create the average of the observations of the last 3 months of data instead from the observations.
If one gets over the issue in #1 above, decomposes the data, and gets the trend separated out (ie. take out particularly the random variation/noise), how would you then get a slope metric from that? Namely, if I wanted to then fit a linear model to the trend component of the raw data (after decomposing), what would be the x (independent) variable?
In the simplest case of a linear model, the independent variable is the unit of time corresponding to the prediction you are trying to make. However this is not always regarded a time series model.
In the case of an autoregressive model, this would be the previous observation of what you are trying to predict, something similar to y(t) = x(t-1), for instance multiplied by a smoothing factor. I encourage you to read Forecasting: principles and practice which is an excellent book on the matter.
Is there a way to connect the trend component of the ts-decompose function with the original data's x-axis data (in this case the actual test date/times, say converted to weeks or days from a fixed date)?
The function decompose.ts returns a list which includes trend. Trend is a vector of the estimated trend components corresponding to it's respective time value.
Let's create an example time series with linear trend
df <- data.frame(
date = seq(from = as.Date("2021-01-01"), to = as.Date("2021-01-10"), by=1)
)
df$value <- jitter(seq(from = 1, to = nrow(df), by=1))
time_series <- ts(df$value, frequency = 5)
df$trend <- decompose(time_series)$trend
> df
date value trend
1 2021-01-01 0.9170296 NA
2 2021-01-02 1.8899565 NA
3 2021-01-03 3.0816892 2.992256
4 2021-01-04 4.0075589 4.042486
5 2021-01-05 5.0650478 5.046874
6 2021-01-06 6.1681775 6.051641
7 2021-01-07 6.9118942 7.074260
8 2021-01-08 8.1055282 8.041628
9 2021-01-09 9.1206522 NA
10 2021-01-10 9.9018900 NA
As you see, the trend component already is an estimate of the dependent variable at the corresponding time. In decompose the estimate of trend is based on a moving average.
I have my Response variable which is Proportion of Range Exposed to extreme events for terrestrial mammal species in the future. More clearly, it is the Difference of Proportion of Range Exposed (DPRE) from historical period to future green gases emission scenarios (it is a measure of the level of increase/decrease of percentage of range exposed): it means that my response variable goes from -1 to 1 (where +1 implies that the range will experience a +100% increase in the proportion of exposure: from 0% in historical period, to 100% in the future scenario).
As said, I am analyzing these differences for all terrestrial mammals (5311 species, across different scenarios and for two time periods, near future (means of 2021-2040) and far future (means of 2081-2100).
So, my Explicative variables are:
3 Scenarios of green gas emissions (Representative Concentration Pathways: RCP2.6, RCP4.5 and RCP8.5);
Time Periods (Near Future and Far Future): NF and FF;
Species: 5311 individuals.
I am not so expert in statistics , so I'm not sure which of the two suggestions I recieved:
Friedman test with Species as blocks (but in which I should somehow do a nested model, with RCPs as groups, nested within TimePeriods; or a sort of two way Friedman, with RCP and TimePeriod as the two different factors).
Linear Mixed Models with RCP*TimePeriod as fixed effects, and (TimePeriod | Species ) as random effects.
I run t-test, and all distribution result to be not normal, this is why I was suggested to use Friendman instead of ANOVA; I run pairwise Wilcoxon Rank Sum test and in this case I found significative differences from NF and FF for all RCPs.
I have to say I run 3 Wilcoxon, one for every RCP, so maybe a third option would be to create 3 different models, one for every RCP, but this would also go away from the standard analysis of "repated measures" for Friedman test.
Last consideration: I have to run Another model, where the Response variable is the Difference of Proportion of Subrange Exposed. In this case, other Explicative variables are mantained, but in this case analysis is not global but takes in consideration the difference that could be present across 14 IUCN Biomes. So every analysis is made across RCPs, for NF and FF and for all Biomes. Should I create and run 14 (biomes) x 3 (RCPs) x 2 (Time Periods) = 84 models, in this case? OR a sort of double nested (Time Periods and Biomes) model?
If necessary I can provide the large dataframe.
I have 700 hourly time series from 2010 to 2014 of gas consumption. One time serie represents the consumption of one companies.
Some have constant consumption, other consume only 4 months of the year and some have a high volatility consumption. As a consequence I would like to cluster them according to the shape of the consuption curve.
I tried the R package "kml", but i do not have good results. I also tried the "kmlShape" package, but it seems that i have too much data, and each time R quit..
I wondered if using Fast fourier transform and then cluster it could be a good idea? My goal is to really distinguish the group that the consumption is constant to those whose consumption is variable.
Then I would like to cluster the variable consummer in function of the peak and when they consumme.
I also tried to calculate the mean et variance of each clients, then cluster it with k-mean but it not very good, i can see 2 cluster, one with 650 clients and on other with 50...
thanks
first exemple`
2nd exemple
Here are three exemple of what I have, I have 700 curves likes that, some are high variables, some pretty constant.
I would like to cluster them according to their shape in order to have one group where the consumption is pretty constant, an other where the consumption is highly variable and try to cluster it according to the time the peak appear
I am a biologist working in aquaculture nutrition research and until recently I haven't paid much attention to the power of statistics. The usual method of analysis had been to run ANOVA on final weights of animals given various treatments and boom, you have a result. I have tried to improve my results by designing an experiment that could track individuals growth over time but I am having a really hard time trying to understand which model to use for the data I have.
For simplified explanation of my experiment: I have 900 abalone/snails which were sourced from a single cohort (spawned/born at the same time). I have individually marked each abalone (id) and recorded a length and weight at Time 0. The animals were then randomly assigned 1 of 6 treatment diets (n=30 abalone per treatment) each replicated n=5 times (n=150 abalone / replicate). Each replicate looks like a randomized block design where each treatment is only replicate once within each block and each is assigned to independent tank with n=30 abalone/tank (n treatment). Abalone were fed a known amount of feed for 90 days before being weighed and measured again (Time 1). They are back in their homes for another 90 days before the concluding the experiment.
From my understanding:
fixed effects - Time, Treatment
nested random effects - replicate, id
My raw data entered is in Long format with each row being a unique animal and columns for Time (0 or 1), Replicate (1-5), Treatment (1-6), Sex (M or F) Animal ID (1-900), Length (mm), Weight (g), Condition Factor (Weight/Length^2.99*5655)
I have used columns from my raw data and converted them to factors and vectors before using the new variables to create a data frame.
id<-as.factor(data.long[,5])
time<-as.factor(data.long[,1])
replicate<-as.factor(data.long[,2])
treatment<-data.long[,3]
weight<-as.vector(data.long[,7])
length<-as.vector(data.long[,6])
cf<-as.vector(data.long[,10])
My data frame is currently in the following structure:
df1<-data.frame(time,replicate,treatment,id,weight,length,cf)
I am struggling to understand how to nest my individual abalone within replicates. I can convert the weight data to change from initial but I think the package nlme already accounts this change when coded correctly. I could also create another measure of Specific Growth Rate for each animal at Time 1 but this would not allow the Time factor to be used.
lme(weight ~ time*treatment, random=~1 | id, method="ML", data=df1))
I would like to structure a mixed effects model so that my code takes into account the individual animal variability to detect statistical differences in their weight at Time 1 between treatments.
I am doing my master thesis in Electrical engineering about the impact of the humidity and
temperature on power consumption
I have a problem that is related to statistics, numerical methods and mathematics topics
I have real data for one year (year 2000)
Every day has 24 hours records for temperature, humidity, power consumption
So, the total points for one parameter, for example, temperature is 24*366 = 8784 points
I classified the pattern of the power to three patterns:
Daily, seasonally and to cover the whole year
The aim is to find a mathematical model of the following form:
P = f ( T , H , t , date )
Where,
P = power consumption,
T = temperature,
t = time in hours from 1 to 24,
date = the date number in the year from 1 to 366 ( or date number in a month from 1 to 31)
I started drawing in Matlab program a sample day, 1st August showing the effect of time,
humidity and temperature on power consumption::
http://www7.0zz0.com/2010/12/11/23/264638558.jpg
Then, I make the analysis wider to see what changes happened when drawing this day with the next day:
http://www7.0zz0.com/2010/12/11/23/549837601.jpg
After that I make it wider and include the 1st week of august:
http://www7.0zz0.com/2010/12/11/23/447153078.jpg
Then, the whole month, august:
http://www7.0zz0.com/2010/12/12/00/120820248.jpg
Then, starting from January, I plot power and temperature for 1st six months without
humidity (only for scaling):
http://www7.0zz0.com/2010/12/12/00/908911392.jpg
with humidity :
http://www7.0zz0.com/2010/12/12/00/102651717.jpg
Then, the whole year plot without humidity:
( P,T,H have constant values but I separate H only for scaling since H values are too much higher than P and H and that cause shrinking of the plot making small plots for P and T)
http://www7.0zz0.com/2010/12/11/23/290259320.jpg
and finally with humidity:
http://www7.0zz0.com/2010/12/11/23/842530863.jpg
The reason I have plotted these figures is to follow the behaviors of all parameters. How P is changing with respect to Temperature, Humidity, and time in hours and time in day number.
It is clear that these figures represent cyclic behavior but this behavior is not
constant. It is starting to increase and then decrease during the whole year.
For example the behavior of 1st January is almost the same as any other day in the year
but the difference is in shifting up or down, left or right.
Also, Temperature and Humidity are almost sinusoidal. However, Power consumption behavior is not purely sinusoidal as seen in the following figure:
http://www7.0zz0.com/2010/12/12/00/153503144.jpg
I am not expert in statistics and numerical methods, and this matter now does not have relation with electrical engineering concept.
The results I am aiming to get are:
Specify the day number in the year from 1 to 366,
then specify the hour in that day,
temperature and humidity also will be specified.
All of these parameters are to be specified by the user
The result:
The mathematical model should be capable to find the power consumption in that specific hour of that day.
Then, the Power found from the model will be compared to the measured real power from the
data and if the values are very close to each other, then the model will be accurate and
accepted.
I am sorry for this long question. I actually read many papers, many helps but I could not
reach to the correct approach of how to find one unified model by following the curves
behavior from starting till the end of the year and also having more than one independent
variable has disturbed me a lot.
I hope this problem is not difficult for statistics and mathematics experts.
Any help will be highly appreciated,
Thanks in advance
Regards
About this:
"Also, Temperature and Humidity are almost sinusoidal. However, Power consumption behavior is not purely sinusoidal"
Seems in local scale (several days/weeks order) temperature and humidity can be expressed as periodic train of Gaussians:
After such assumption we can model power consumption as superposition of temperature and humidity trains of Gaussians. Consider this opencalc spreadsheet chart:
in which f1 and f2 are train of gaussians (here only 4 peaks, but you may calculate as many as you need for data fitting) and f3 is superposition of these two trains,-
just (f12 + f22)1/2
However i don't know to what degree power consumption follows the addition of train of gaussians. You may invest time to explore this possibility.
Good luck!