Thank you so much. 11:30 was exactly what I needed.

Thank you Dr. Ming Tommy Tang.

Sir, I don’t have knowledge of R programming or any other computer language. But I want to GSEA analysis of my rna seq data. Can you suggest any methods

Thank you very much! The video is very useful but I am still struggling with merging and splitting assays in Seurat. It would be cool if you could make a video about that :)

Cool!

Sir I want to know if you are familiar with circular rna analysis

Sir is this book still there i want to purchase it

The RAM: 💀

Can you guide on how to make pipeline for tumor-only samples?

Thanks! The files I've downloaded from GEO are in .CEL.gz and .CHP.gz format - how can I use these with your work flow?

Totally useful, thanks for sharing this. I would love to see some videos on regular expressions (so we can wrangle everything easier) and awk!

This video is exactly what I am looking for.

Thank you so much for informative video ❤. I'm a PhD student from china. I recently found your channel, I am a beginner or r learner. I want to learn TCGA or geo data wrangling, I mean mostly use it only cancer vs normal, I want to see how much we have options in dataset to make group. If you have any video please recommend me, or I also can arrange a online class if you have any appointment.

Thank you for great video!!

That's an amazing lecture!

Thank you for the video. Can you fix the resolution? The video is too blurry.

Thank you for the resources!!! Excited to go over them :D

Some distracting static noise or loud mouse clicking in this video. I love this channel, just a heads up!

thank you for these instructions could you please make a video teaching aspiring phd condidates how to look for research subjects (what to read/ how to spot ideas for research/ the reasoning etc ) thank u

Thank you, this was very helpful! Appreciate your clear explanation :)

Thank you for great video!!

Thank you for great video. I love your channel!

please share the data for practicing.

Hello Tom, thanks for such a wonderful tutorial. Currently, i have worked how to do the single cell RNA-Seq starting from the .hf file format from 10x genomics. i do not know how to retrieve the data from GEO Datasets for single cell rna seq analysis and to which file format we will convert this data first for scRNA-Sed analysis

Thank you for your videos

Thank you Dr for very informative tutorial. I am wondering whether you could suggest how to do this with DEG output from Seurat? From seurat FindMarker Function, we get gene name, p_value, avg_log2FC, pct.1, pct.2 and p_val_adj. We do not have baseMean like DESEq2 at all. I tried to do it with my data, but was not succeed. Hope you could guide. I wanted to test enrichment using hallmark geneset. Thank in advance!

Great course! I hope there will be more systematic computer biology courses in the future!

thank u so much for ur valuable content if u can apply noise reduction for better sound quality next time please

Nice lectures. Already you in my X followup.

thank u for sharing these resources i'm a beginner in this field and by chance i stumbled on them lol

Thank you. Greetings from Bimac Research Group, universidad del Cauca, Colombia.

Excellent

Really helpful video, but instead of downloading the entire GEO series, can we download only our relevant data, such as the h5 files? I tried to create the Seurat object using only these files, but when I'm trying to use the 'find variables' function, I get an error indicating that the number of variables is zero.

Thanks for this video. I am a bioinformatics student. I have two queries. 1. After using enrichGO function we get the GO terms. But how to get the parent terms of certain specific level for a list of 100 GO terms ? 2. How to change the RNASeq RSEM values into TPM values ?

Wonderful presentation Sir! Can I get link to slide?

too slow and has gene number limits

I have ftp_links ,Now how can generate count matrix ? Can you guide me in short? ftp://ftp.sra.ebi.ac.uk/vol1/run/ERR116/ERR11657684/scrEXT001_hg19_S9_L008_I1_001.fastq.gz

Awesome! I often wondered how to go from long to wide (and vice versa) on command line. This addresses my curiosity! Thanks a lot!

Great! Thanks for sharing!

Thank you for this tuto

thank you so much for your valuable content could you make one for sc-RNA seq for beginners

Hello, so most of the datasets that I'm finding come with the 3 files (matrix, features, barcodes), do you have a video on how to automate this? I am currently making individual seurat objects and it takes a long time. Best, Maria

Hello, thank you so much for this video, Do you maybe work as an online tutor? I would really need some tutoring for my upcoming exam next week

I believe it would be great if you come up with some case studies. Write the scripts and explain and reach to a conclusion for that instead of just talking about the theory. There is a lot out there. Thank you 😊

Regarding the bioinformatics we can design gene accurately by sending sequence to the right company?

Hi Tommy, is there a possibility of purchasing your ebook "From cell line to command line" through Wechat Pay or Alipay? Thanks

You're doing the lord's work

Hi Tommy, Is there a way to evenly partition/ split samples to create pseudo-replicates for a scRNA seq dataset with one sample per condition?Thanks in advance!!

can we do the same for C elegans?

Very informative