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Biostatsquid
Spain
Приєднався 3 лис 2022
Welcome to Biostatsquid!
In this channel, you will find clear explanations and hands-on tutorials for analysing and interpreting biological data.
- Learn basic techniques in biostatistics, from heatmaps to pathway enrichment analysis.
- Manage your data and create publication-ready visualisations by following my easy step-by-step tutorials in R and Python.
- Practical explanations without complex formulas for you to understand your datasets and be able to interpret your results.
Are you ready to dive in? Don't miss any other video and hit that subscribe button!
In this channel, you will find clear explanations and hands-on tutorials for analysing and interpreting biological data.
- Learn basic techniques in biostatistics, from heatmaps to pathway enrichment analysis.
- Manage your data and create publication-ready visualisations by following my easy step-by-step tutorials in R and Python.
- Practical explanations without complex formulas for you to understand your datasets and be able to interpret your results.
Are you ready to dive in? Don't miss any other video and hit that subscribe button!
Easy p-values with an example
In this video, we will discuss p-values and how to interpret them- easily explained! We will go through p-values and what they mean with an example! You might have heard that a p-value lower than 0.05 or 0.01 is statistically significant... but what does that mean exactly?
And as always, you can find the full explanation at biostatsquid.com
Hope you like it!
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Watched it already?
If you liked this video or found it useful, please let me know! Your comments and feedback are very much appreciated😊 And if you find my content helpful, you might consider buying me a coffee! Any kind of support is greatly appreciated:)
www.buymeacoffee.com/biostatsquid
If you have questions, don't hesitate to leave me a comment down below, I will answer as soon as I can:)
--------------------------------------------------------------------------------------------------------------------
Are you into biostatistics and computational analysis?
For more biostatistics tools and resources, you can visit:
biostatsquid.com/
Follow me on Instagram at @biostatsquid:
/ biostatsquid
For more
• simple and clear explanations of biostatistics methods
• computational biology tools
• easy step-by-step tutorials in R and Python
to analyse and visualise your biological data!
Don’t forget to subscribe if you don’t want to miss another video from me! --------------------------------------------------------------------------------------------------------------------
Other interesting resources:
p-value by Josh Starmer - highly recommended channel for statistics! ua-cam.com/video/vemZtEM63GY/v-deo.html
p-values for beginners (datatab): datatab.net/tutorial/p-value
And as always, you can find the full explanation at biostatsquid.com
Hope you like it!
--------------------------------------------------------------------------------------------------------------------
Watched it already?
If you liked this video or found it useful, please let me know! Your comments and feedback are very much appreciated😊 And if you find my content helpful, you might consider buying me a coffee! Any kind of support is greatly appreciated:)
www.buymeacoffee.com/biostatsquid
If you have questions, don't hesitate to leave me a comment down below, I will answer as soon as I can:)
--------------------------------------------------------------------------------------------------------------------
Are you into biostatistics and computational analysis?
For more biostatistics tools and resources, you can visit:
biostatsquid.com/
Follow me on Instagram at @biostatsquid:
/ biostatsquid
For more
• simple and clear explanations of biostatistics methods
• computational biology tools
• easy step-by-step tutorials in R and Python
to analyse and visualise your biological data!
Don’t forget to subscribe if you don’t want to miss another video from me! --------------------------------------------------------------------------------------------------------------------
Other interesting resources:
p-value by Josh Starmer - highly recommended channel for statistics! ua-cam.com/video/vemZtEM63GY/v-deo.html
p-values for beginners (datatab): datatab.net/tutorial/p-value
Переглядів: 218
Відео
Detect and remove doublets in R (scRNAseq)
Переглядів 4555 місяців тому
In this tutorial I will explain how to remove doublets from scRNAseq data in R using R package after running one or more doublet detection tools. For this tutorial, I’ll be using RStudio, and you’ll need the tidyverse packages as well as Seurat. You will learn how to: - get doublet/singlet count and percentage for one or more doublet detection tools -get doublet vs singlets stats -remove high-c...
Easy DoubletFinder tutorial in R (scRNAseq)
Переглядів 6455 місяців тому
In this tutorial I will explain how to detect and remove doublets from scRNAseq data in R using R package DoubletFinder. For this tutorial, I’ll be using RStudio, and you’ll need the package DoubletFinder. You will learn how to: - run DoubletFinder -get doublet vs singlets stats -add doublet/singlet annotations to your Seurat object - and more! And as always, you can find the code I am using in...
Easy doublet detection in R with scDoubletFinder (scRNAseq)
Переглядів 4045 місяців тому
In this tutorial I will explain how to detect and remove doublets from scRNAseq data in R using R package scDoubletFinder(). For this tutorial, I’ll be using RStudio, and you’ll need the package scDoubletFinder. You will learn how to: - run scDoubletFinder -get doublet vs singlets stats -add doublet/singlet annotations to your Seurat object - and more! And as always, you can find the code I am ...
How does doublet finder work? Easy explanation!
Переглядів 4376 місяців тому
In this video, we will discuss the main concepts behind DoubletFinder, a doublet-finding tool for scRNAseq in R - easily explained! We will go through the main steps it uses to mark cells in your Seurat dataset as doublets. R tutorial coming up next! And as always, you can find the full explanation at biostatsquid.com: biostatsquid.com/ Hope you like it!
Violin plots tutorial with ggplot2 in R (part 2)
Переглядів 3907 місяців тому
In this tutorial I will explain how to create and customise your own violin plots in R. In particular, we will cover facet_wrap, facet_grid, and how to create your own violin plot function. For this tutorial, I’ll be using RStudio, and you’ll need the package ggplot2. You will learn how to: - plot a violin plot in R - customise and edit labels, colours, themes - plot grouped violin plots - and ...
Violin plots tutorial with ggplot2 in R (part 1)
Переглядів 1,5 тис.7 місяців тому
In this tutorial I will explain how to create and customise your own violin plots in R. For this tutorial, I’ll be using RStudio, and you’ll need the package ggplot2. You will learn how to: - plot a violin plot in R - customise and edit labels, colours, themes - plot grouped violin plots - and more! And as always, you can find the code I am using in this tutorial at biostatsquid.com, where you ...
EASY violin plots and boxplots - simple explanation with examples
Переглядів 9798 місяців тому
In this video, we will discuss the main concepts behind violin plots and boxplots - easily explained! We will go through what are violin plots and boxplots and how to interpret it and use it to visualise our biological data. And as always, you can find the full explanation at biostatsquid.com: biostatsquid.com/interpret-density-plots/ Hope you like it! Watched it already? If you liked this vide...
How to interpret density plots - simple explanation with examples!
Переглядів 3 тис.9 місяців тому
In this video, we will discuss the main concepts behind density plots - easily explained! We will go through what is a density plot and how to interpret it and use it to visualise our biological data. And as always, you can find the full explanation at biostatsquid.com: biostatsquid.com/interpret-density-plots/ Hope you like it! Watched it already? If you liked this video or found it useful, pl...
Logistic regression - easily explained with an example!
Переглядів 2,1 тис.9 місяців тому
In this video, we will discuss the main concepts behind Logistic regression - easily explained! We will go through what is logistic regression, when to use it and how to interpret the coefficients. And as always, you can find the full explanation at biostatsquid.com Hope you like it! biostatsquid.com/easy-logistic-regression/ Watched it already? If you liked this video or found it useful, pleas...
SingleR EASY TUTORIAL: step-by-step cell type annotation in R
Переглядів 2 тис.10 місяців тому
In this tutorial I will explain how to do cell type annotation with the R package SingleR. After a brief introduction to reference-based automatic cell type annotation and SingleR, we will go step by step through the workflow, including preparing our input data, running SingleR, interpreting the results and some tips and tricks to get the most out of SingleR. For this tutorial, I’ll be using RS...
COMPLETE SURVIVAL ANALYSIS tutorial in R: Kaplan-Meier, Cox regression, Forest Plots...
Переглядів 9 тис.Рік тому
In this tutorial, I will explain how to perform survival analysis in R, including log rank test, Cox regression, Kaplan-Meier curves, and more! We will use the R packages ggsurvplot, survminer and survival. You will learn how to: - plot a Kaplan Meier curve - test for differences between groups using the log rank test - build a survival model with Cox regression - and visualise your results wit...
COX REGRESSION and HAZARD RATIOS - easily explained with an example!
Переглядів 26 тис.Рік тому
In this video, we will discuss the main concepts behind Cox regression for survival time analysis - easily explained! We will go through hazard ratios, coefficients, p-values and confidence intervals. I will also give you simple and practical guidelines on how to interpret the results from Cox regression, with an example! And as always, you can find the full explanation at biostatsquid.com Hope...
LOG RANK TEST for survival analysis - easily explained with an example!
Переглядів 10 тис.Рік тому
In this video, we will discuss the main concepts behind the Log Rank Test - easily explained! I will also give you simple and practical guidelines on how to interpret the results from the Log Rank test And as always, you can find the full explanation at biostatsquid.com Hope you like it! biostatsquid.com/easy-log-rank-test/ Watched it already? If you liked this video or found it useful, please ...
How to interpret KAPLAN-MEIER curves - Easily explained!
Переглядів 21 тис.Рік тому
In this video, we will discuss the main concepts behind Kaplan-Meier curves- easily explained! I will also give you simple and practical guidelines on how to interpret a Kaplan-Meier curve. And as always, you can find the full explanation at biostatsquid.com Hope you like it! biostatsquid.com/kaplan-meier-curve/ Watched it already? If you liked this video or found it useful, please let me know!...
Easy survival analysis - simple introduction with an example!
Переглядів 4,5 тис.Рік тому
Easy survival analysis - simple introduction with an example!
Top tips to create pretty plots in R (ggplot2)
Переглядів 1,8 тис.Рік тому
Top tips to create pretty plots in R (ggplot2)
Gene Set Enrichment Analysis (GSEA) with fgsea - easy R tutorial
Переглядів 12 тис.Рік тому
Gene Set Enrichment Analysis (GSEA) with fgsea - easy R tutorial
Pathway Enrichment Analysis plots: easy R tutorial
Переглядів 11 тис.Рік тому
Pathway Enrichment Analysis plots: easy R tutorial
Pathway enrichment analysis tutorial in R with clusterProfiler()
Переглядів 17 тис.Рік тому
Pathway enrichment analysis tutorial in R with clusterProfiler()
Step-by-step heatmap tutorial in R with pheatmap()
Переглядів 13 тис.Рік тому
Step-by-step heatmap tutorial in R with pheatmap()
How to interpret a heatmap for differential gene expression analysis - simply explained!
Переглядів 26 тис.Рік тому
How to interpret a heatmap for differential gene expression analysis - simply explained!
Mapping and aligning sequencing reads | NGS read preprocessing in R (Part 3)
Переглядів 7802 роки тому
Mapping and aligning sequencing reads | NGS read preprocessing in R (Part 3)
Quality check on sequencing reads | NGS read preprocessing in R (Part 2)
Переглядів 9062 роки тому
Quality check on sequencing reads | NGS read preprocessing in R (Part 2)
Quality check on sequencing reads | NGS read preprocessing in R (Part 1)
Переглядів 4,1 тис.2 роки тому
Quality check on sequencing reads | NGS read preprocessing in R (Part 1)
Standard scRNAseq preprocessing workflow with Seurat | Beginner R
Переглядів 9 тис.2 роки тому
Standard scRNAseq preprocessing workflow with Seurat | Beginner R
How to interpret GSEA results and plot - simple explanation of ES, NES, leading edge and more!
Переглядів 31 тис.2 роки тому
How to interpret GSEA results and plot - simple explanation of ES, NES, leading edge and more!
Gene Set Enrichment Analysis (GSEA) - simply explained!
Переглядів 36 тис.2 роки тому
Gene Set Enrichment Analysis (GSEA) - simply explained!
Pathway enrichment analysis - simple explanation!
Переглядів 30 тис.2 роки тому
Pathway enrichment analysis - simple explanation!
FDR, q-values vs p-values: multiple testing simply explained!
Переглядів 13 тис.2 роки тому
FDR, q-values vs p-values: multiple testing simply explained!
Thanks for the great explanation of PCA 😊
Well explained! Peace out
Thank youuuu
You make very helpful videos! Thanks :)
This was so helpful, thank you. I was trying to analyse the heat map of a publication and could not understand anything. THis video really broke it down and now I know what to look for.
Fantastic clear explanation, thank you!
Best videos on internet . Need more statistics topics to be covered. Thanks a lot
For real a very good video! This actually helped me to understand the subject quite well.
Thank you for this lesson, i found it very useful and easy to understand. Grettings from Mexico! your videos have helped me to get through my masters degree
Thank you
This is nicely explained and clear. Thank you so much!
This was brilliant, thank you
Basics of Survival Analysis made so lucid. Well Done!
thanks for your video. Every scientific video is very valuable.
Could you please show how to add a portion/command to run the same chosen variables for the Cox regression to do univariate analysis simultaneously and tabukate the results. Excellent video, thank you so much for making this and making the code available!
very informative video
Do you have more information on the DEG data? Is it disease vs control? Which disease and which tissue?
Teacher, df and significant_df, which one is suitable for bg_gene? Tanks so much.
Teacher, i need ur help, since the dataset is df gene, why many p value is above 0.05? how do i get the df gene set for my scRNA?
Hello, teacher. Why not set ontology = "Reactome" in the new function? Thanks so much.
At last i fully understood the concept. Thank you
I have a question: Let's say I want to calculate the PCA of children's grades at school to know how it impacts the final grade average of each child. For that I have my sample, which would be all the children in a class, for example. Then I have the grades of those children in different subjects such as Math, History, Physical Education, etc. And I also have the average. Do I add the average as another variable to the PCA analysis? Or should I make a correlation, for example, between PC1 and the average and see the PCA loadings?
I need help, teacher. Since df include all the gene not just the differential genes, how to get the whole genes list since i saw that some p value is above 0.05, how do i get that list for my scRNA analysis. Appreciate it.
The necklace makes the whole video
very clear explanation
Thanks so much. I wondered that the y-axis should use adjusted p value instead of raw p value, is that true?
Thanks for your comment! In general, when showing the results of multiple testing like in this case, it is more advisable to use p-adjusted values than raw p-values, yes!
Amazing explanation, thank you! The graphics make it so much easier to understand and the video is also very entertaining to watch.
good video and nicely explained with good visuals. The only small issue is that your voice was too low.
Very clear explanation! Thanks!
Very good teacher! Thanks!
This is a great video. Thanks!
good work. thanks
thanks for your help!
Lady you are good. But you only tell the facts half only. We get easily confused in certain points like gmt files in half way. If are decided to teach just do it correctly. For beginners in bioinformatics you are mocking is. Half truth is worse and worst than lying.
kuch smjh na aya!!!
Thank you!
hi thank you for a very good video, how would you interpret the HR 7,4 for smoking in one of the slides? 7,4 times higher risc of death compared to non smokers?
Thank you so much for this video but we would like to see the codes you're running so that we can replicate the same
what is the career opportunities in this field
That's a german accent right? Many thanks for the video.. really enjoyed the explanations!
Thanks for the video, this really explains it in a nutshell! This may be not in your alley, but what would PC2 to be if you would plot geochemical data with each variable being an element (PC1 seems to be rock type). Thanks in advance!
Awesome! Thank you for sharing these insights. That's very helpful for my current research project and I decided to switch from SPSS to R ;-)
SUPERB THANKS <3
Perfect explanation for Principal Component Analysis
Thanks for your valuable tutorial.🙏🌹
First and foremost, thank you for providing such a detailed video. I am having an unusual difficulty with my data. I have 2345 significantly differentially expressed genes, and when I try to plot all of the significant genes, I can see all of the gene names on the volcano plot. However, when I try to visualize merely 30 or 100 genes, the codes work correctly but I am unable to see them. Could you help provide me some advice on how to solve this issue? Thank you in advance.
fix your mic
❤
Thanks
Thanks a lot