QPCR | Fold Changes and Student 's t-tests from qRT-PCR experiment
kandi X-RAY | QPCR Summary
kandi X-RAY | QPCR Summary
Two python scripts aim at calculating the Delta_Ct, Delta_Delta_Ct, Fold Changes, Student's t-test, and P-value value which produced by Quantitative real-time polymerase chain reaction (qRT-PCR).
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Top functions reviewed by kandi - BETA
- Main function to run the function
- Calculate statistics for each sample
- Calculate the Factor of a DataFrame
- Tests two arrays
- Creates a star
- Reshape dataframe to csv
- Parse input
- Read an input file
- Return the minimum value of an array
- Remove outliers
- Parse command line arguments
QPCR Key Features
QPCR Examples and Code Snippets
Community Discussions
Trending Discussions on QPCR
QUESTION
Suppose I want to show in a barplot the gene expression results (logFC) based on RNA-seq and q-PCR analysis. My dataset looks like that:
...ANSWER
Answered 2021-Apr-22 at 07:19Following the linked answer, it seems quite natural how to extend it to your case. In the example below, I'm using some dummy data structured like the head()
data you gave, since the csv link gave me a 404.
QUESTION
I'm writing a script to perform LLoD analysis for qPCR assays for my lab. I import the relevant columns from the .csv of data from the instrument using pandas.read_csv()
with the usecols
parameter, make a list of the unique values of RNA quantity/concentration column, and then I need to determine the detection rate / hit rate at each given concentration. If the target is detected, the result will be a number; if not, it'll be listed as "TND" or "Undetermined" or some other non-numeric string (depends on the instrument). So I wrote a function that (should) take a quantity and the dataframe of results and return the probability of detection for that quantity. However, on running the script, I get the following error:
ANSWER
Answered 2021-Feb-23 at 16:00Does the following achieve what you want? I made some assumptions on the structure of your data.
QUESTION
I try to write a pdf file with a header, logo and table using iText7 in c#.
I never used iText7 before and therefore I don't know how to write text in a paragraph to a fixed position.
Right now I am just using tabstops as anchors for my text. But the problem here is, when the string is too long everything following in the line will be shifted by a tabstop and the "columns" in the header aren't aligned anymore.
The following picture is what I want too achieve:
This picture shows what happens if a string gets too long (in this example I used a long username):
Here is a code snippet I use to write one line of the header:
...ANSWER
Answered 2021-Feb-07 at 02:49Instead of Tab/Tabspace use Tables and Cells so that alignment will be proper.
Create table of column 8 size (Label, Value, space , Label, Value, Space, Label, Value)
Use this sample Code.
PdfPTable table = new PdfPTable(8);
PdfPCell cell;
cell = new PdfPCell();
cell.setRowspan(2); //only if spanning needed
table.addCell(cell);
for(int aw=0;aw<8;aw++){
table.addCell("hi");
}
QUESTION
I have a list of articles obtained from an API, with my dataframe looking like this:
...ANSWER
Answered 2021-Jan-12 at 18:35This is mostly a dupe from Rui's comment, but it helps to add a help-column to get it (I'll use row
here). Since you started using data.table
, I'll stick with that.
Edited to work with the updated data. (I'm assuming that pmid
uniquely defines the groups.)
QUESTION
I'm studying some projects in R and was faced with this situation
...ANSWER
Answered 2020-Oct-22 at 22:11rowr was removed from CRAN, see here: https://cran.r-project.org/web/packages/rowr/index.html
You can install an old version from the archive, to see if the code still works.
If it doesn't, then take a look at the 'rollapply' function from the 'zoo' package, it looks very similar to what the function you presented here is doing.
QUESTION
I am doing error analysis of predictive models and I need to calculate global error, this is, I need to calculate the resultant error from propagation of indirect measurements errors. My data "df" looks like something similar to this
Where 'x' and 'y' are the measured variables, and 'x_se' and 'y_se' the standard errors of these measurements
I have used function 'propagate' from package 'qpcR' for the first row
...ANSWER
Answered 2020-Jul-16 at 12:47This is one possible solution to obtain the res$summary
for each row of your dataframe.
You first create a custom function my_fun
that does what you were trying to do for a single row of the dataframe. Then, you apply
this function to each row of your dataframe. The end result would be a list
with as many elements as your dataframe rows.
QUESTION
This is my first ever post so do let me know if there's anything not right or how I can improve, I am a complete novice to all this. For example, I didn't know how to make a proper table for my data so it is in bullet points.
So I currently have a data output from running a qPCR. I have the relative expression of my gene of interest in my treatments alongside the Standard Error, 95% Confidence intervals and P(H1) probability result is due to chance.
...ANSWER
Answered 2020-May-20 at 16:34You can use geom_errorbar()
to plot your own confidence intervals.
For example (bioinformatics is not my field, I'm making stuff up, sorry :D):
QUESTION
good day
is it possible to have multiple instances of a screen each using unique data? for example, i have a 'homescreen' with various buttons for various categories that takes you to a batch list screen unique to that category where you can add batches to be listed. each buttons batch list screen would have unique data to that category but the template for all batch list screens are the same.
ive made a simple example for one category but in order to expand it to the others would i need to repeat the code and create appropriately named .kv files and add each screen to the screen manager.
.py
...ANSWER
Answered 2020-May-10 at 21:34As this is a lot of code you will have a hard time finding someone to give you a specific answer. Without looking through all of your code, yes it is possible to have multiple instances of a screen with unique data. This is exactly the use case of class instances. You simply need to pass a variable, list or object into the instance. I will give you a short example, then you should be able to figure it out yourself for your code.
QUESTION
I have trajectories of some moving objects in a data frame for example three trajectories were considered here as shown below:
...ANSWER
Answered 2020-Feb-20 at 19:47It is not completely clear what you mean with "radius of a trajectory". Here I assume you want to fit data points of a trajectory with a circle that runs through these points. We will look at your first example.
QUESTION
I want to collect specific information from data.xml with root[0] 'CaplockSet' contain more than 100 'Caplock' in which I need only author information to be extracted! Kindly help me with this, your support is highly appreciated.
...ANSWER
Answered 2020-Feb-14 at 08:23Maybe this should work
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Install QPCR
You can use QPCR like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.
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