Mad how you managed to make such a cohesive tutorial to this awesome method in under an hour. Thanks a lot!
@mocabeentrill
2 жыл бұрын
Thank you for the comprehensive tutorial🙏. You're the best!
@saratavallaei
Жыл бұрын
This is one of the best tutorials about WGCNA , suggesting it to anyone interested in network analysis. Thank you so much!!
@072sakibsarker7
3 ай бұрын
Thank you so much. I learned a lot of things from your videos.
@keshavprasad6485
2 жыл бұрын
Excellent Tutorial. Great Effort. Thanks.
@jamesgalante993
2 жыл бұрын
Damn -- this tutorial is awesome, thank you so much!
@mailenortega2212
Жыл бұрын
Thank you very much for sharing your knowledge, this video was very useful for me. 😉
@cometellier7983
7 ай бұрын
Thank you so much, I'll try to understand it but it'll be so helpful I think !
@ahmedal-mammari9639
2 жыл бұрын
You're the best!
@hourirazavi873
3 ай бұрын
That was great. Thank you so much
@AbhishekSingh-qu5qr
2 жыл бұрын
Hi, Thank you for such a nice tutorial. Could you please also add a section here or in your codes to get the verboseBoxplot for the module of interest or all the modules. That will be very helpful. Thank you in advance.
@akhileshmishra9616
Жыл бұрын
Hi, This is really useful. Great job! One query, How we can use the end result i.e. list of genes correlated to specific phenotypes to build a gene regulatory network?
@carolinamartini9850
Жыл бұрын
amazing tutorial
@hunny1215
5 ай бұрын
thanks a lot for this tutorial.
@Jiwon7-u9v
2 ай бұрын
Thank you so much for the video! Really helpful. May I please ask, to select for hub gene of a module, do I just have to look at the gene with the lowest pvalue in the module?
@mazb33
Жыл бұрын
Thank you for such a nice and detailed video; Can you please answer how can we use the "chooseTopHubInEachModule" function? Thanks
@saeedkhazayel7779
2 ай бұрын
Hello. Thank you for your good explanation. Is it possible to merge Multiple GSEs which is performed under the same GPL and run this test after that?
@iiminute4217
9 ай бұрын
thank you for this amazing video, I just happen to have a doubt, that i could not clarify from internet, In the inputgene expression matrix can we also include wildtype samples along with disease condition, like in diffrenetial expression analysis. My guess is No, but i just wanted to confirm it.
@nataliagarcia5404
Жыл бұрын
very useful tutorial! Are there any methods integrating topology analysis of metabolic pathways with wgcna?
@KN-tx7sd
Жыл бұрын
excellent
@saraalidadiani5881
Жыл бұрын
Thank you again for an excellent video. May you please explain how we have to choose the numbers for minModuleSize and maxBlockSize in blockwiseModules? thank you in advance, looking forward to hearing from you!
@saraalidadiani5881
2 жыл бұрын
Thank you for the helpful video; when we want to relate the trait file, is it essential that covid be 1 and the rest zero, or can it be vice versa(covid be 0 and healthy 1)? Will it make change the results?
@Bioinformagician
2 жыл бұрын
It can be vice-versa. The order of encoding should not change the result
@xinyiliu9909
Жыл бұрын
Thank you for the practical showcase! I wonder if we can use kendall's correlation instead of the default pearson's correlation for module.trait.corr? Look forward to your answers! :)
@Hartecky
2 жыл бұрын
Thank you for your work and tutorial here, I have a question: How to interpret negative correlation of a module with trait ? Let's say MEyellow has correlation of -0.66 (also statistically significant) to disease_state_bin. Thank you in advance for you answer
@Bioinformagician
2 жыл бұрын
It the trait is of continuous type, then it means gene expression follow the opposite trend to that of trait value. Higher the trait value, lower the gene expression and vice versa. However in case of categorical traits (like disease_state_bin), it just indicates that the difference in gene expression between two groups is significantly different.
@freezingtolerance7493
11 ай бұрын
Hello, I am dealing with RNA-seq data wherein only treatment name and corresponding expression data. Thus, I do not have any traits. In this case, I cannot calculate p-values? you made heatmap based on traits you are interested. but, can I put treatment names instead of traints?
@sonaaritra
Жыл бұрын
Hello, is it possible to download the gene to gene Pearson correlation data for all genes that are present module turquoise? Is there any command for that? I previously used rcorr() function to get gene expression correlation matrix from any given datasets. So, just thinking if it is possible to download a similar matrix for individual module of any WGCNA analysis.
@fearfullywonderfullymade824
Жыл бұрын
Hi, Can we do WGCNA for a whole genome CRISPR screen
@drgutharajasekar6275
6 ай бұрын
why Module eigenegene is called first conponent of PCA and why this First component is required in WGCNA. Average gene expression is of a module is not enough for ME caluculation.
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