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ChimeraX Tutorial: Structural Analysis and Alignments | Brown Lab
This video is brought to you by the Brown Lab at Virginia Tech. In this tutorial we will go over how to align proteins and structural analysis.
ChimeraX Download: www.cgl.ucsf.edu/chimerax/dow...
Brown Lab Website: bevanbrownlab.com/
Music by DivKid - Rich in the 80s : th-cam.com/video/Ii5zHb6KZT0/w-d-xo.html
0:00 Intro
มุมมอง: 1 017

วีดีโอ

ChimeraX Tutorial: Making a Holiday Tree | Brown Lab
มุมมอง 1.9Kปีที่แล้ว
This video is brought to you by the Brown Lab at Virginia Tech. Inspiration From: pdbeurope/status/944231363141689344 michelanglo.sgc.ox.ac.uk/r/christmas ChimeraX Download: www.cgl.ucsf.edu/chimerax/download.html Brown Lab Website: bevanbrownlab.com/ Music by DivKid - Rich in the 80s : th-cam.com/video/Ii5zHb6KZT0/w-d-xo.html 0:00 Intro 0:25 Inspiration 0:35 Making the Tree Trunk 1...
ChimeraX Tutorial: Movie Making Tips | Brown Lab
มุมมอง 3.6Kปีที่แล้ว
This video is brought to you by the Brown Lab at Virginia Tech. Previous Tutorial: th-cam.com/video/ZtOwsH5ohlM/w-d-xo.html ChimeraX Download: www.cgl.ucsf.edu/chimerax/download.html Written Version: docs.google.com/document/d/1VX1KP2iyDuUjCErBzzHFhayePlZsgBUs/edit?usp=share_link&ouid=101052807458285977815&rtpof=true&sd=true Brown Lab Website: bevanbrownlab.com/ Music by DivKid - Rich in the 80...
ChimeraX Tutorial: Custom Movies Using Commands | Brown Lab
มุมมอง 8Kปีที่แล้ว
This video is brought to you by the Brown Lab at Virginia Tech. ChimeraX Download: www.cgl.ucsf.edu/chimerax/download.html Written Version: docs.google.com/document/d/1VX1KP2iyDuUjCErBzzHFhayePlZsgBUs/edit?usp=share_link&ouid=101052807458285977815&rtpof=true&sd=true Brown Lab Website: bevanbrownlab.com/ Music by DivKid - Rich in the 80s : th-cam.com/video/Ii5zHb6KZT0/w-d-xo.html 0:00 Intro 0:30...
ChimeraX Tutorial: Movie Making Basics | Brown Lab
มุมมอง 7Kปีที่แล้ว
This video is brought to you by the Brown Lab at Virginia Tech. In this Tutorial we will go over the basics of making movies in ChimeraX. ChimeraX Download: www.cgl.ucsf.edu/chimerax/download.html Written Version: docs.google.com/document/d/1VX1KP2iyDuUjCErBzzHFhayePlZsgBUs/edit?usp=share_link&ouid=101052807458285977815&rtpof=true&sd=true Brown Lab Website: bevanbrownlab.com/ Music by DivKid - ...
ChimeraX Tutorial: User Interface Options and Tools | Brown Lab
มุมมอง 11Kปีที่แล้ว
This video is brought to you by the Brown Lab at Virginia Tech. In this tutorial we will go over the user interface and look at some of the tools and options. ChimeraX Download: www.cgl.ucsf.edu/chimerax/download.html Written Version: docs.google.com/document/d/1VX1KP2iyDuUjCErBzzHFhayePlZsgBUs/edit?usp=share_link&ouid=101052807458285977815&rtpof=true&sd=true Brown Lab Website: bevanbrownlab.co...
ChimeraX Tutorial: Download/Installation & User Interface Layout | Brown Lab
มุมมอง 10Kปีที่แล้ว
This video is brought to you by the Brown Lab at Virginia Tech. In this tutorial we will go over how to download & install ChimeraX and breakdown the user interface. ChimeraX Download: www.cgl.ucsf.edu/chimerax/download.html Written Version: docs.google.com/document/d/1VX1KP2iyDuUjCErBzzHFhayePlZsgBUs/edit?usp=share_link&ouid=101052807458285977815&rtpof=true&sd=true Brown Lab Website: bevanbrow...
ChimeraX Tutorial: Using the command-line to create visualizations | Brown Lab
มุมมอง 10Kปีที่แล้ว
This video is brought to you by the Brown Lab at Virginia Tech. In this tutorial we will go over how to use the command line to create high quality visualizations. ChimeraX Download: www.cgl.ucsf.edu/chimerax/download.html Written Version: docs.google.com/document/d/1VX1KP2iyDuUjCErBzzHFhayePlZsgBUs/edit?usp=share_link&ouid=101052807458285977815&rtpof=true&sd=true Brown Lab Website: bevanbrownl...
2021-11-23 ds4biomed: Tidy Data w/ Exercises
มุมมอง 592 ปีที่แล้ว
R Workshop on Tidy Data principles using short exercises during the class (formative assessments) along with a "final" summative assessment question at the very end. Materials: ds4biomed.tech/
2021-11-18 ds4biomed: Tidy Data w/ Exercises
มุมมอง 702 ปีที่แล้ว
R Workshop on Tidy Data principles using short exercises during the class (formative assessments) along with a "final" summative assessment question at the very end. Materials: ds4biomed.tech/
ds4biomed: More Data Processing and Introduction to Modeling in R Day 2
มุมมอง 872 ปีที่แล้ว
R Workshop Part II Day 2: More Data Processing and Introduction to Modeling in R Materials: ds4biomed.tech/ 0:00 - Join follow up date arithmetic 16:10 - leading causes of death, adjusted rates, Census API call 1:14:34 - Survival models (forgot to change the scene in the beginning) 1:53:34 - Audience Question 2:00:13 - Machine Learning Intro 2:58:53 - Conclusion
ds4biomed: More Data Processing and Introduction to Modeling in R Day 1
มุมมอง 682 ปีที่แล้ว
R Workshop Part II Day 1: More Data Processing and Introduction to Modeling in R Materials: ds4biomed.tech/ 0:00 - 30-Day Readmission 1:07:08 - Joins 1:30:34 - Databases 1:54:56 - Functions 2:42:43 - Get Census API key
ds4biomed: Introduction to Data Science Fundamentals in Python with Biomedical Applications Day 2
มุมมอง 862 ปีที่แล้ว
Python Workshop Day 2: Introduction to Data Science Fundamentals in Python with Biomedical Applications (ds4biomed) workshop on September 22-23 from 2PM - 5PM (EDT). Materials: ds4biomed.tech/ Code from class: github.com/chendaniely/2021-09-22_23-ds4biomed-py 0:00 - Intro Recap Review 20:45 - Tidy data 1:19:25 - Plotting seaborn 2:05:21 - Logistic regression statsmodels scikitlearn 2:52:28 - Cl...
ds4biomed: Introduction to Data Science Fundamentals in Python with Biomedical Applications Day 1
มุมมอง 2052 ปีที่แล้ว
Python Workshop Day 1: Introduction to Data Science Fundamentals in Python with Biomedical Applications (ds4biomed) workshop on September 22-23 from 2PM - 5PM (EDT). Materials: ds4biomed.tech/ Code from class: github.com/chendaniely/2021-09-22_23-ds4biomed-py 0:00 - Intro 16:52 - Spreadsheets 43:51 - Python JupyterLab 47:50 - Working directories Load data 1:09:02 - Subsetting data Data Pipeline...
ds4biomed: Introduction to Data Science Fundamentals in R with Biomedical Applications Day 2
มุมมอง 872 ปีที่แล้ว
ds4biomed: Introduction to Data Science Fundamentals in R with Biomedical Applications Day 2
ds4biomed: Introduction to Data Science Fundamentals in R with Biomedical Applications Day 1
มุมมอง 1112 ปีที่แล้ว
ds4biomed: Introduction to Data Science Fundamentals in R with Biomedical Applications Day 1
ds4biomed part II June 30, 2021
มุมมอง 463 ปีที่แล้ว
ds4biomed part II June 30, 2021
ds4biomed Part I June 29, 2021
มุมมอง 793 ปีที่แล้ว
ds4biomed Part I June 29, 2021
ds4biomed Workshop May 18 & 19, 2021 UVA Part 1
มุมมอง 473 ปีที่แล้ว
ds4biomed Workshop May 18 & 19, 2021 UVA Part 1
ds4biomed Workshop May 18 & 19, 2021 UVA Part 2
มุมมอง 613 ปีที่แล้ว
ds4biomed Workshop May 18 & 19, 2021 UVA Part 2
ds4biomed Workshop February 2 & 4, 2021 Part 2
มุมมอง 603 ปีที่แล้ว
ds4biomed Workshop February 2 & 4, 2021 Part 2
ds4biomed Workshop February 2 & 4, 2021 Part 1
มุมมอง 1133 ปีที่แล้ว
ds4biomed Workshop February 2 & 4, 2021 Part 1
ds4biomed Business of Healthcare Workshop 2020-12-09
มุมมอง 253 ปีที่แล้ว
ds4biomed Business of Healthcare Workshop 2020-12-09
ds4biomed Workshop October 20 & 22, 2020 Part 2
มุมมอง 763 ปีที่แล้ว
ds4biomed Workshop October 20 & 22, 2020 Part 2
ds4biomed Workshop October 20 & 22, 2020 Part 1
มุมมอง 3173 ปีที่แล้ว
ds4biomed Workshop October 20 & 22, 2020 Part 1
Molecular Modeling Using PyMOL: 3 Guide to Good Visualizations | Brown Lab
มุมมอง 10K4 ปีที่แล้ว
Molecular Modeling Using PyMOL: 3 Guide to Good Visualizations | Brown Lab
Molecular Modeling Using PyMOL: 2 Measurements and Labeling | Brown Lab
มุมมอง 16K5 ปีที่แล้ว
Molecular Modeling Using PyMOL: 2 Measurements and Labeling | Brown Lab
Molecular Visualization Using PyMOL: 1 Introduction/User Interface | Brown Lab
มุมมอง 33K5 ปีที่แล้ว
Molecular Visualization Using PyMOL: 1 Introduction/User Interface | Brown Lab
How to Install Molecular Docking Software for Windows | Brown Lab
มุมมอง 10K5 ปีที่แล้ว
How to Install Molecular Docking Software for Windows | Brown Lab
How to Install Molecular Docking Software for Mac | Brown Lab
มุมมอง 25K5 ปีที่แล้ว
How to Install Molecular Docking Software for Mac | Brown Lab

ความคิดเห็น

  • @bensho3
    @bensho3 22 วันที่ผ่านมา

    thanks for the video! question: it takes my computer more than an hour to create the morph, does it suppose to take so long?

  • @professorswenson3504
    @professorswenson3504 หลายเดือนก่อน

    How do you make it more shiny?

  • @hebaelzorkany
    @hebaelzorkany หลายเดือนก่อน

    Great tutorial! would U pls share the Commands used in this video in a file?

  • @meenalchauhan9011
    @meenalchauhan9011 2 หลายเดือนก่อน

    great video, thanks! How to add scale bar for a 3D protein structure, given that I don't know the size of the protein in angstrom or nanometers?

  • @EllaWatkinsDulaneyPhD
    @EllaWatkinsDulaneyPhD 3 หลายเดือนก่อน

    Very thorough, very useful! Thank you very much for the tutorial.

  • @tripwithpanda
    @tripwithpanda 3 หลายเดือนก่อน

    The hide comment you mention is working for the atomic model only but not the ribbons. Is there a way to do the same for the ribbon model?

    • @tripwithpanda
      @tripwithpanda 3 หลายเดือนก่อน

      I found my answer! The command will be "cartoon hide" in place of "hide". But great tutorial, thanks!

  • @MARTINespartano1
    @MARTINespartano1 3 หลายเดือนก่อน

    Very clear and easy to understand

  • @wubishetmengistu5874
    @wubishetmengistu5874 3 หลายเดือนก่อน

    Great Video. I am just a beginner. Please help me how to get back the Toolbar across the top of the ChimeraX window that contains icons for performing actions with a single click, including home, molecular display, nucleotide, graphics, etc.

  • @anthonyanthony1226
    @anthonyanthony1226 4 หลายเดือนก่อน

    I've always wanted to make these kinds of videos since I saw myosin walking 😂 this was soo helpful!

  • @andreasvoloudakis8603
    @andreasvoloudakis8603 5 หลายเดือนก่อน

    Very explicit video. Thank you. I tried to download the MGLtools (mgltools_i86Darwin9_1.5.6.dmg (GUI installer 65Mb)) for my Mac along with XQuartz 2.7.11. I am running the macOS Big Sur (v. 11.7.7). I got the message that AutoDockTools needs to be updated. I would appreciate your assistance to identify the correct package I need to install in my computer.

  • @arjuno6992
    @arjuno6992 5 หลายเดือนก่อน

    can u please post a video for pyrx and biovia discovery studio

  • @fancytracy
    @fancytracy 5 หลายเดือนก่อน

    such an amazing content

  • @user-vz5on1nb3r
    @user-vz5on1nb3r 6 หลายเดือนก่อน

    I had tried the tutorial, but i get stuck as pip was not installed

  • @dragon123tt9
    @dragon123tt9 8 หลายเดือนก่อน

    I believe I keep getting an error: C:\Users\Public\Desktop\movie1.mp4: Permission denied. is there some sort of computer setting I need to change to allow mp4 downloads from chimeraX?

    • @GyGyk-je4pn
      @GyGyk-je4pn 6 หลายเดือนก่อน

      Looks like you are on windows. You can give your folder permission by Right-click the file or folder, and then click "Properties". Click the Security tab. Under Group or user names, click your name to see the permissions you have. Click Edit, click your name, select the check boxes for the permissions that you must have, and then click OK. PS. Make sure you are the admin of your system.

  • @subratadasgupta5000
    @subratadasgupta5000 9 หลายเดือนก่อน

    Thanks for the video, very helpful

  • @anshumansahu1087
    @anshumansahu1087 9 หลายเดือนก่อน

    Thank you for making this video.

  • @user-pe5lo9yi9l
    @user-pe5lo9yi9l ปีที่แล้ว

    Hello, I am watching your TH-cam well. When using the ball stick mode of the chimerax program Can you adjust the thickness of the cylinder and the size of the sphere?

  • @syahirmuhammad347
    @syahirmuhammad347 ปีที่แล้ว

    May I know how to save hbonds in text file just by using the command line?

  • @ShanilPanara
    @ShanilPanara ปีที่แล้ว

    This was brilliant!! Thank you!!

  • @qazalehtakalloo7705
    @qazalehtakalloo7705 ปีที่แล้ว

    I installed all correctly, however, the MGLtool does not work on my MAC as it says it needs update. Can someone help me? I cannot create virtual machine.

  • @alonsovilca7013
    @alonsovilca7013 ปีที่แล้ว

    Why did u create copies of the protein? The reason

  • @medimindscare
    @medimindscare ปีที่แล้ว

    Plz...explain about chime tool

  • @soleneduverger9466
    @soleneduverger9466 ปีที่แล้ว

    Very usefull, thank you

  • @SanazKazeminia
    @SanazKazeminia ปีที่แล้ว

    hello, why am not able to create a rama plot with this version? could you make a video? would be much appreciated! thanks!

  • @huiruchen7808
    @huiruchen7808 ปีที่แล้ว

    Thank you so much for such detailed and well-explained tutorial videos. As a beginner, I am really grateful!

  • @TanyaPerry-hf2sy
    @TanyaPerry-hf2sy ปีที่แล้ว

    Good!

  • @KhadijaIMANI-sk6vx
    @KhadijaIMANI-sk6vx ปีที่แล้ว

    please how can i get autodock tools to work in MacOS 11 Big Sur ?

  • @rodenluo
    @rodenluo ปีที่แล้ว

    Awesome videos! Thanks very much for posting them. Would be great to see more!

  • @user-yf9dd6xv5b
    @user-yf9dd6xv5b ปีที่แล้ว

    Could you teach for docking by using open-babel on mac please ><

  • @parneetkaur7068
    @parneetkaur7068 ปีที่แล้ว

    When I open the Autodock tool, it shows that the software needs to be updated. Could you help with this error message?

  • @linneaaxelsson6574
    @linneaaxelsson6574 ปีที่แล้ว

    Thank you for the nice tutorial series! I am wondering if there is any command to remove the black border at the top and bottom of the videos recorded in chimeraX? Thanks again!

  • @lteresalloretsanchez6383
    @lteresalloretsanchez6383 ปีที่แล้ว

    Thank you for the explain de principal menu options. Could you make a video explaying how to locate and visulalice a peptide inside de protein. Thank you!

  • @romanbibi8744
    @romanbibi8744 ปีที่แล้ว

    My download option is not show

  • @Professional_chemist
    @Professional_chemist ปีที่แล้ว

    Thank you 🙏 Nice explanation 🎉

  • @pouyewotenamboariane143
    @pouyewotenamboariane143 ปีที่แล้ว

    I have not yet received the email to continue the procedure

  • @debomondal
    @debomondal 2 ปีที่แล้ว

    Great tutorial. Thank you very much. Learned a lot.

  • @lydiakisula7397
    @lydiakisula7397 2 ปีที่แล้ว

    Hello sir, thank you for the video, I want to adjust the label but the 3 Button editing doesn't move

  • @mayuribhattacharyya8961
    @mayuribhattacharyya8961 2 ปีที่แล้ว

    Sir , why we measure those distances? What are the benifits?

  • @zareaalzarea836
    @zareaalzarea836 2 ปีที่แล้ว

    can you show how to label the alpha and beta helices and sheets

  • @tamizhiniloganathan9708
    @tamizhiniloganathan9708 2 ปีที่แล้ว

    Could anybody tell me how to install Autodock tools in Mac? It says some upgrade OS TO Catalina. Could anyone tell me about it?

  • @obasajuwinner215
    @obasajuwinner215 2 ปีที่แล้ว

    Thank you Brown Lab, made installation easy

  • @ramuparupalli9832
    @ramuparupalli9832 3 ปีที่แล้ว

    On what basis you have selected residues 323 and 449... Why not other residues...?? Ho would we know which residue is showing interactions with ligand??

  • @prachikhattar4812
    @prachikhattar4812 3 ปีที่แล้ว

    Great video you have explained so well. When are you coming up with succeeding videos of the series?

  • @saminagul3230
    @saminagul3230 3 ปีที่แล้ว

    hi

    • @saminagul3230
      @saminagul3230 3 ปีที่แล้ว

      I couldn't get ppar file at the end. What should I do?

  • @ArunKumar-fw6yz
    @ArunKumar-fw6yz 3 ปีที่แล้ว

    Thank you! Could you please show how to design the bilipid layer background for membrane proteins?

  • @nonlawat
    @nonlawat 3 ปีที่แล้ว

    Thanks for your super helpful vdo. I have a problem about PIP. It says " couldn't find index page for "pip". (maybe misspelled?). Any suggestion?

  • @MultiCougar66
    @MultiCougar66 3 ปีที่แล้ว

    Incredibly helpful. Thank you!

  • @tanvikhokhawat1341
    @tanvikhokhawat1341 3 ปีที่แล้ว

    Hello! Can you help me with Biovia discovery studio visualiser download in Mac? I can see its download links for windows and linux but can't seem to find a link for MacBook!

    • @arjuno6992
      @arjuno6992 5 หลายเดือนก่อน

      same 😭

  • @egs8545
    @egs8545 3 ปีที่แล้ว

    I have heard it is better to use APBS plug in rather than vacuum electrostatics can anyone tell me why?

  • @kessaria92
    @kessaria92 3 ปีที่แล้ว

    i just want Baudock vina to do ligand docking screening but i guess i need MGL tools too. Is there a way to install MGL tools for macOS Catalina (64 bit)? I've installed vina but can't open anything with it. i need the MGL tools right? or PyRx ?