- Видео 202
- Просмотров 192 050
Dr. VDB
США
Добавлен 27 авг 2018
Hey Everyone, welcome to my channel!
I am a Geneticist/Computational Biologist who has has a passion for programming, and for teaching. My channel currently offers tutorials and lessons on R, Linux and Python with a focus on biological problems. My goal is to demonstrate that R and Python are very accessible and anyone with a computer can learn these skills! I try and add content semi regularly, but it usually comes in spirts as I have time to develop a new curriculum. If there are Python or R packages that you would be interested in seeing a video of, please leave a comment or shoot me a message and I'll see what I can do!
Thanks for watching!
Cheers,
Dr. VDB
I am a Geneticist/Computational Biologist who has has a passion for programming, and for teaching. My channel currently offers tutorials and lessons on R, Linux and Python with a focus on biological problems. My goal is to demonstrate that R and Python are very accessible and anyone with a computer can learn these skills! I try and add content semi regularly, but it usually comes in spirts as I have time to develop a new curriculum. If there are Python or R packages that you would be interested in seeing a video of, please leave a comment or shoot me a message and I'll see what I can do!
Thanks for watching!
Cheers,
Dr. VDB
Python - Sequence Annotation Pt 3 - VDB Computational Biology
In this video, we will continue to work on sequence annotation with python.
Просмотров: 96
Видео
Python - Feature Matching (OpenCV) - VDB Computational Biology
Просмотров 148Год назад
In this video, we will take a training image and detect it in a larger image.
Python - Object Detection (OpenCV) - VDB Computational Biology
Просмотров 159Год назад
In this video, we will look at object detection via OPENCV for the purposes of phenotyping.
Python - Computer Vision Pt 3 - VDB Computational Biology
Просмотров 105Год назад
In this video, we will conclude our introduction to computer vision for phenomics.
Python - Corner Detection (OpenCV) - VDB Computational Biology
Просмотров 256Год назад
In this video, we will look at a method for determining corners.
Python - Computer Vision Pt 1 - VDB Computational Biology
Просмотров 162Год назад
In this video, we will look at computer vision with open cv for the purpose of phenotyping.
Python - Computer Vision Pt 2 - VDB Computational Biology
Просмотров 140Год назад
In this video, we will continue to learn about computer vision for the purposes of phenotyping.
Python - Edge Detection (OpenCV) - VDB Computational Biology
Просмотров 104Год назад
In this video, we will look at ways to define and detect edges in biological data.
Python - Pria & Chat GPT - VDB Computational Biologty
Просмотров 97Год назад
In this video, we will look at how to leverage ai technology such as Chat GPT to better code.
Python - Blast - VDB Computational Biology
Просмотров 567Год назад
In this video, we will look at how to run blast from the python command line.
Python - Sequence Alignment Pt 5 - VDB Computational Biology
Просмотров 195Год назад
In this video, we will conclude by looking at local alignments.
Python - Sequence Alignment Pt 4 - VDB Computational Biology
Просмотров 125Год назад
In this video, we will look at local sequence alignment.
Python - Sequence Alignment Pt 3 - VDB Computational Biology
Просмотров 111Год назад
In this video, we will continue our journey on sequence alignment with Biopython.
Python - Sequence Alignment Pt 2 - VDB Computational Biology
Просмотров 114Год назад
In this video, we will continue our analysis of sequence alignment with biopython
Python - Sequence Alignment Pt 1 - VDB Computational Biology
Просмотров 151Год назад
In this video, we will get an introduction to sequence alignment with Biopython
Python - Sequence Input Output pt 3 - VDB Computational Biology
Просмотров 95Год назад
Python - Sequence Input Output pt 3 - VDB Computational Biology
Python - Sequence Input Output Pt 2 - VDB Computational Biology
Просмотров 76Год назад
Python - Sequence Input Output Pt 2 - VDB Computational Biology
Python - Sequence Input Output - VDB Computational Biology
Просмотров 91Год назад
Python - Sequence Input Output - VDB Computational Biology
Python - Sequence Objects pt 4 - VDB Computational Biology
Просмотров 102Год назад
Python - Sequence Objects pt 4 - VDB Computational Biology
Python - Sequence Objects - VDB Computational Biology
Просмотров 174Год назад
Python - Sequence Objects - VDB Computational Biology
Python - Sequence Objects pt 3 - VDB Computational Biology
Просмотров 105Год назад
Python - Sequence Objects pt 3 - VDB Computational Biology
Python - Secuence Annotation Pt 4 - VDB Computational Biology
Просмотров 97Год назад
Python - Secuence Annotation Pt 4 - VDB Computational Biology
Python - Sec Annotation Pt 2 - VDB Computational Biology
Просмотров 84Год назад
Python - Sec Annotation Pt 2 - VDB Computational Biology
Python - Sequence Objects pt 2 - VDB Computational Biology
Просмотров 131Год назад
Python - Sequence Objects pt 2 - VDB Computational Biology
Advanced Python - Sequence Annotation Part 1 - VDB Computational Biology
Просмотров 166Год назад
Advanced Python - Sequence Annotation Part 1 - VDB Computational Biology
Intro to Python - Transcription - VDB Computational Biology
Просмотров 295Год назад
Intro to Python - Transcription - VDB Computational Biology
Intro to Python - Translation - VDB Computational Biology
Просмотров 248Год назад
Intro to Python - Translation - VDB Computational Biology
Intro to Python - Intro to Github Pt 2 - VDB Computational Biology
Просмотров 150Год назад
Intro to Python - Intro to Github Pt 2 - VDB Computational Biology
Intro to Python - Intro to Github Pt 1 - VDB Computational Biology
Просмотров 190Год назад
Intro to Python - Intro to Github Pt 1 - VDB Computational Biology
Intro to Python - Command Line Programs - VDB Computational Biology
Просмотров 167Год назад
Intro to Python - Command Line Programs - VDB Computational Biology
Background music is loud that can't even hear your voice properly
Lee Michelle Walker Laura White Kenneth
Hey, I have some queries about R not being able to "open the connection" when typing in the raw data chunk. -> I am also quite frankly confused about the chronology of the videos, as I have had to scroll through your playlist to find videos and their counterparts (such as your stringR set of videos). -> I have most recently completed the stringR set, but have no clue what to do now. My most recent predicament is that I was -*-painstakingly-*- able to find some Bioconductor-based help to download some of the packages I saw at the beginning of your DESeq and EdgeR videos, but neither work- the prompt I see is "R cannot open the connection," or something along those lines. Please help- I am really trying to get into R and have found your content easy to follow.
in my r studio it says tooth data not found. is there a special package to be installed for it ?
i got wrong on data frame. I write almost like yours, have no idea
dr VDB you just saved my life
your bg sound is so irritating man
Guess I'm the minority but I like the background music lol
forgot to add part 2 of molecular biology to the molecular biology playlist
Greetings, Dr. VDB. I'm Aaron, and I'm currently a neuroscience student applying bioinformatics to molecular immunology research. I've been following along with your tutorial thus far and have been loving it, but I seem to be having some issues with trying to convert the document to a PDF file. I've tried to install a number of packages such as "pdftools," but that has been of no avail. Additionally, the console prompt registers a message such as "this package was built under (some) version of R," or something along those lines. Might you have any fix for me?
I'm having the same problem. Did you solve the problem?
thank you
Hello, Doc. I have been following your videos for a while and I have learnt a lot. I would love to connect with you to ask some questions concerning Bioinformatics for Msc.
Thank you so much for making this video!! This is very useful :))
Hi! Thank you for your video. Amazing. Do you happen to have your script available for all? I dont want to rite all the code from this video but to just modify. Can u lend us in some way? Cheers🙂
Hi Dr. VDB, First of all Kudos for the videos, they are really informative. I have a little doubt: Whenever I am trying to filter the "nycflights13" dataset by specific months and day, it's showing the error "object "day" or "month" not found. The code I am using is : filter(my_data, month == 10, day == 14) The dataset is successfully integrated as I can run the "names(my_data)" Please guide.
You're doing a great Job 👍. However please lower the the background volume in your subsequent videos.
THANK YOU SO MUCH FOR SPENDING YOUR PRECIOUS TIME MAKING THESE VALUABLE LECTURES FOR POOR STUDENTS LIKE US, PROFESSOR VDB! I WISH YOU ALL THE BEST.
Really appreciate all your lectures in Bioinformatics!
Thank you!
What's the theme and the font that you are using? Thanks.
Why it says the package is not avaliable for my version of R
Really really helpful videos!!!!
nice video. One question - I couldn't see the results of str_view on the viewer option. why would that be?
Commenting to say this course has been great so far! I had R and R studio downloaded for the longest, but didn't see any good video courses until I landed on yours by chance. They're short and sweet which is great for my tiny attention span lol. Thanks
The background music is so annoying and distracting
I just want to say that I have been reviewing R and your playlist lessons are one of the easiest lessons I've been able to follow. Great teaching style and love the background music :)
Learning a lot, thank you!
Thank you so much. I need to learn a few things about R and Python for Bioinformatics and wasn't really sure where to begin. Thanks for these videos, I'll sure pay close attention to learn a lot. Thanks again
Thank you very much for your teaching. How to download the data files used in the video?
Please silent the music,it z too distracting
I appreciate your work but the music is very distracting
Reduce the background music
could you put the link in the comments please?
i cant seem to get the fast file to work on my end:/ it keeps taking me to a website to download github instead of letting me access a file
I think you got the axis wrong for the plot
great video tho
Hello Dr.VDB Please my link is not working please. Can you help me with that
Link is eaten by youtube, don't see it.
you previously mentioned that b-catenin and wnt activity further allows ovary development however, at 32.12, you mentioned in the absence of wnt inhibitors, allow wnt/b-catenin activity and form penis. I could not understand it exactly?
Your probably not gonna read this but I actually love you. I binge watch your videos and they're so good. That and your saving my genetics research grade from tanking into the 60s
Love these videos Dr. VDB! My research mentor asked me to learn EdgeR and I opened the manual and couldn't understand anything until I started going through your video series. Thank you! For those who couldn't find the data easily - I found it here: osdr.nasa.gov/bio/repo/data/studies/OSD-102
It seems not to run... at least on my computer; file my_blast.xml has not been created before. It could on chunk 14 instead of m_cold.fasta, may appear my_blast.xml?
thanks for makin g it look so easy
Hey VDB, great video as always! I’ve been wondering for a why you use “computational biology” instead of “bioinformatics” in your videos. It’s because computational biology is used to solve biological problems where as bioinformatics is for tool and database creation commonly, no? I’ve been wanting to become a computational biologist working with genetics and genomics (I’m currently doing a biomedical science bachelors). If I do a genetics PhD, can I still work on the computational side? If I do a bioinformatics masters (either the one in Lund, Sweden or Upsalla, Sweden, if you’ve heard of them), will that give me enough of a good base to work on the computational side if I decide to pursue a genetics PhD? Thanks!
Hi @petrichor1956 I generally use Computational Biology instead of Bioinformatics as more of a catch-all for the tools I cover. Bioinformatics is usually related to only sequences, protein, rna, dna, etc. Computational biology (in my view) is a more broad concept which incorporates things like phenomics, phylogenies, modeling (etc.) some of which I cover or plan to cover in the near future... so Computational Biology felt like a better name. Of course you can do a genetics PhD and do computational studies. I obtained my PhD in Genetics, working on Biofuels, then Plant Evolutionary Biology, then Space Biology. In my opinion, as long as you arm yourself with the tools (like R and Python), then the problems you tackle can change. For instance, I have done some Autism genetic modeling with a collaborator, a lot of space biology, and even metagenomics (video coming soon). In general, the PhD you obtain can give you a good foundation for addressing scientific problems, but it does not commit you to any one line of work/research. I hope this helps!
@@DrVDB I really appreciate you, man. Thanks 🙏 Wish you the best 👍
its seems its lesson 21.
music is too loud :(
Thanks! Really helpful to me!
Great Music man. Love it. Helps me to get my rhythm. Tutorial is fantastic. Kudos <3 Wondering where can I get that kind of music. It would have helped me in my work significantly. Love and respect.
00:03 Proteins are targeted and moved into membranes and organelles. 02:45 Proteins can be translocated into the ER membrane or embedded in the ER 07:45 Proteins are imported into microsomes and organelles through a co-translational translocation process. 10:22 Protein targeting involves translation, signal recognition, binding to the receptor, transfer to translocon, and cleaving the signal sequence. 15:59 Proteins contain hydrophobic alpha helices that span the lipid bilayer in transmembrane proteins. 18:13 Tail anchored proteins have different domains on the cytosolic and exoplasmic side. 22:25 Type 2 and Type 3 transmembrane proteins lack a terminal signaling sequence and have a single internal hydrophobic signal/anchor sequence. 24:27 Proteins can be moved into membranes and organelles through different mechanisms 28:55 Proteins are inserted into membranes with the help of specific signal sequences. 31:10 Transmembrane proteins can be classified into different types based on their N-terminal and C-terminal signal sequences. 35:38 Proteins in membranes undergo modifications, including the addition of oligosaccharides. 38:02 Sugar molecules are transferred from a nucleotide precursor to a carrier molecule and then added to an oligosaccharide chain. 42:40 The protein undergoes disulfide bridge formation through the enzyme PDI. 44:37 Proteins in the ER lumen undergo folding and assembly with the help of chaperones and lectins. 48:59 Hack one mRNA undergoes exonuclease activity to splice out introns and become a fully processed mRNA 51:07 Quality control mechanism in ER involves recognition and transport of misfolded proteins 55:11 Protein import into membranes and organelles involves several steps 57:37 Proteins are moved into membranes and organelles through distinct pathways. 1:02:11 Proteins can be moved into membranes and organelles using different pathways. 1:04:22 Proteins are moved into membranes and organelles through different targeting signals. 1:08:55 Proteins are moved into membranes and organelles with the help of scaffolding. 1:11:02 Proteins can be imported or exported through different mechanisms 1:15:40 dbp5 uses ATP energy to remove nxf1 and nxt1 from the mRNA, allowing it to be translated into a protein. Crafted by Merlin AI.
thank bro your video help me a lot