LiquidBrain Bioinformatics

LiquidBrain Bioinformatics

Frustrated at the state of bioinformatics education and R programming, I created my own.

Email: [email protected]
Github: github.com/brandonyph
Github: github.com/Lindseynicer
Twitter: twitter.com/Brandon_yeoph
Twitter: twitter.com/LianFoong/
Website: www.liquidbrain.org/videos

The story of Ada Lovelace

The story of Ada Lovelace

A story on RNA-Seq and DEGs

A story on RNA-Seq and DEGs

Пікірлер

  • @michaeladams4999
    @michaeladams49992 сағат бұрын

    Thank you so much

  • @DB-kv3wu
    @DB-kv3wu2 күн бұрын

    ❤ Best tutor! Thanks!

  • @DB-kv3wu
    @DB-kv3wu2 күн бұрын

    ❤ Best tutor! Thanks!

  • @himalipandhi9624
    @himalipandhi96242 күн бұрын

    what if I am not using Miseq particularly ? and particular illumina platform is not specified when I get the data ?

  • @himalipandhi9624
    @himalipandhi96242 күн бұрын

    what if i am not using Miseq particularly?

  • @nuriar4314
    @nuriar43144 күн бұрын

    Thanks for the video, it is really useful!! It would have been nice if you showed the imported count_table like you did with the taxonomy file because you used a final.full.count_table that is not produced with the Mothur SOP, is it?? I think a few of us are struggling with the comment lines in the count_table in mothur. Any advice is greatly appreciated 🙃

  • @CoellShen
    @CoellShen4 күн бұрын

    thank you so much for this video, and thank you SO SO SO much for sharing the slides out <3

  • @haraldurkarlsson1147
    @haraldurkarlsson11477 күн бұрын

    It would be nice to know where some of the functions you are using are coming from (without having to visit github). I cannot find locf, nobc or forbak in nomemica. I checked the zoo package. It does not have those but similar ones (na.locf for both LOCF and NOBC).

  • @haraldurkarlsson1147
    @haraldurkarlsson11477 күн бұрын

    Nice presentation. However, I find difficult to find a good account of the difference between the different classes of missings (MCAR, MAR, MNAR). After reading the description of these types of classes by different youtubers I am just left a loss. Perhaps no one can explain these things?

  • @gabrielab5453
    @gabrielab54537 күн бұрын

    This is a fantastic video. Thank you so much!

  • @user-de7iv2sq8r
    @user-de7iv2sq8r8 күн бұрын

    This video made my day. Thank!

  • @yufengliu5971
    @yufengliu597113 күн бұрын

    why gender is not entered as random slope for the two random intercept

  • @saeedjaanz
    @saeedjaanz22 күн бұрын

    exprs(gse)[1,] > Error in exprs(gse)[1,] : subscript out of bound Why?

  • @ashleyhoped
    @ashleyhoped28 күн бұрын

    I have been trying to figure out this part of my analysis for so long and was struggling with where to even begin but this video was perfect! So easy to understand and straight to the point, you're amazing. Thank you!

  • @yannistennyson4732
    @yannistennyson4732Ай бұрын

    How about lenovo loq intel i5 12450hx with 12gb ram and upgradable upto 32 gb. The only issue is its battery backup is around 3 to 3.5 hours.

  • @revolution77N
    @revolution77NАй бұрын

    when it comes to dealing with data science, python have most of modeling in Sklearn. You need pandas only to deal with data frames. In R there are 600 ways to open csv file! Also I find the RDS format in R extremely confusing. Agree that RStudio is more established and easier to work with. Jupyter Lab needs way more development to reach RStudio functionality.

  • @user-vm4tp5ov5c
    @user-vm4tp5ov5cАй бұрын

    I wonder if can upgrade the codes making it possible to use more CPU or GPU to analyse in order to reduce the use of memories.Because i found that excpet memories were highly used,the CPU and GPU were almost unused with the only 20%to30% occupying rates

  • @fotensolution6504
    @fotensolution6504Ай бұрын

    Hello, could you please help me, I used this code to fit the trendline of my data, but the line did not show "> abline(lm(Rawdata$Elevation~Rawdata$Bulk, data=Rawdata))". What could be the possible problem? Your video has been helpful as I am a new user of R. I have successfully implemented your tips until this point. Thanks

  • @mayling1014
    @mayling1014Ай бұрын

    Thank you so much for the explanation! Could you elaborate more about p adjusted value at 17:45 when you mentioned that it is for multiple gene comparison? Specifically, how does it relate to multiple gene comparisons? Does it account for the high number of differentially expressed genes we found?

  • @soyeonkim9355
    @soyeonkim9355Ай бұрын

    I can clearly understand it because it is shown in action. Thank you for the very good explanation.

  • @nikolaik658
    @nikolaik658Ай бұрын

    Im having a problem running Azimuth on my R studio. Did you happen to get it to work?

  • @WuttHmoneKyi
    @WuttHmoneKyiАй бұрын

    Can I compare more than 2 scenarios (more than just formal, informal, etc..) with LLM?

  • @salma-amlas
    @salma-amlas2 ай бұрын

    great video

  • @Seto-nw2gn
    @Seto-nw2gn2 ай бұрын

    Nice work

  • @anadiazmaqueda1030
    @anadiazmaqueda10302 ай бұрын

    what can we do when this happens: > summary(exprs(gse)) GSM1480987 GSM1480988 GSM1480989 GSM1480990 GSM1480991 GSM1480992 Mode:logical Mode:logical Mode:logical Mode:logical Mode:logical Mode:logical ? Thank you for your video!!!!

  • @jacobkenning5926
    @jacobkenning59262 ай бұрын

    insanely helpful, very clear explanation and workshop!

  • @user-sl5ds8kn5x
    @user-sl5ds8kn5x2 ай бұрын

    What’s the name of the song

  • @nuary120896
    @nuary1208962 ай бұрын

    Super useful, super clear. Thank you so much 😁

  • @0jaxay0
    @0jaxay02 ай бұрын

    great explaination, thank you!

  • @maltam3873
    @maltam38732 ай бұрын

    Thumbs up to you guys, what a wonderful channel, looking forward to see more bioinformatic enthusiasts in Malaysia

  • @smcgrady3537
    @smcgrady35372 ай бұрын

    thanks you for this video - good explanation!

  • @user-cg9iq2hp6j
    @user-cg9iq2hp6j2 ай бұрын

    thanks! really helpful!

  • @xudongwang-je6vo
    @xudongwang-je6vo3 ай бұрын

    YES, IT IS VERY VERY HELPFUL FOR ME, THANK YOU!!! SO MUCH!!!

  • @fatimaruna9855
    @fatimaruna98553 ай бұрын

    Great presentation, really helpful.

  • @drgutharajasekar6275
    @drgutharajasekar62753 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.

  • @TillThielmann
    @TillThielmann3 ай бұрын

    Hey, thanks for this good instruction. I tried your code but it will only search for my first word? How can I analyze more than one word at the time?

  • @kadenwinspear7920
    @kadenwinspear79203 ай бұрын

    great couple of videos. Very helpful

  • @clutch3171
    @clutch31713 ай бұрын

    very kind of you to explain this sort of material. it could easily take a book probably for some to get through it.

  • @crackers0413
    @crackers04133 ай бұрын

    Hi, there were a few errors in the code which I can't find solutions to online: Error in read_delim("final.full.count_table", delim = "\t", escape_double = FALSE, : could not find function "read_delim" Warning in install.packages : package ‘ggtree’ is not available for this version of R Warning in install.packages : package ‘treeio’ is not available for this version of R If anyone has experience with these issues, please comment

  • @os2171
    @os21713 ай бұрын

    Same here

  • @patricianesci3713
    @patricianesci37133 ай бұрын

    I installed MikTex, checked the updates and when I want to knit the Rmarkdown it says: "Error: LaTeX failed to compile ..."

  • @gem_game12
    @gem_game123 ай бұрын

    Hi. I'm working with tcga data. There are lot of traits associated with a cancer. Is it possible to perform WGCNA analysis without trait? Thank you.

  • @taehoonkim7819
    @taehoonkim78193 ай бұрын

    Also note that M means either match or mismatch, so that it is compatible with the alignment.

  • @russeljohng.delfin3371
    @russeljohng.delfin33713 ай бұрын

    Can bayesian networks be used in water quality modeling? can you give me some ways to do it?

  • @belajarbiologi9839
    @belajarbiologi98394 ай бұрын

    This is very nice,,thank you very much for kindly making this tutorial

  • @lakshmipriyaridevi1033
    @lakshmipriyaridevi10334 ай бұрын

    Very useful video, exactly what I was looking for.

  • @judithazi7362
    @judithazi73624 ай бұрын

    Thank you very much!

  • @innovative_learner
    @innovative_learner4 ай бұрын

    CAnt download raw data, it gives following error: <Error> <Code>AccessDenied</Code> <Message>Access Denied</Message> <RequestId>548G3NM2GXQM8VFW</RequestId> <HostId>D2RiKgdI96sfQm0QmNeVWqsEwQvGcDbGHYpOZq0WxcYcjBEhl6nJkQ1MxPE+dkkf6lkhsNYPCSc=</HostId> </Error> Can you help?

  • @jasminsalma23
    @jasminsalma234 ай бұрын

    Sorry for God sake what is this languager she is speaking, thanks

  • @rafael_vergani
    @rafael_vergani4 ай бұрын

    Very nice.