diff --git a/docs/tutorials/Martini3/LipidsII/index.qmd b/docs/tutorials/Martini3/LipidsII/index.qmd index c69bad75..3ec8dd2c 100644 --- a/docs/tutorials/Martini3/LipidsII/index.qmd +++ b/docs/tutorials/Martini3/LipidsII/index.qmd @@ -10,7 +10,7 @@ In case of issues, please contact [lpborgesaraujo@tecnico.ulisboa.pt](mailto: lp ### Summary - [`Introduction`](#introduction) - [`Complex mixtures with Insane`](#complex-mixtures-with-insane) - - [`Analysis — hexagonality`](#analysis-—-hexagonality) + - [`Analysis — hexagonality`](#analysis-hexagonality) - [`Adding a new lipid headgroup: lysyl-PG`](#adding-a-new-lipid-headgroup-lysyl-pg) - [`Creating the lysyl-PG topology`](#creating-the-lysyl-pg-topology) - [`Adding lysyl-PG to Insane`](#adding-lysyl-pg-to-insane) diff --git a/docs/tutorials/Martini3/lectures.qmd b/docs/tutorials/Martini3/lectures.qmd index 91b30b4e..b90f609a 100644 --- a/docs/tutorials/Martini3/lectures.qmd +++ b/docs/tutorials/Martini3/lectures.qmd @@ -5,35 +5,35 @@ format: html
-- `Introduction to Martini 3` - *by Paulo C. T. Souza* - [[Watch]](https://youtu.be/lx8P577COfM) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/Introduction_to_Martini3.pdf) +- `Introduction to Martini 3` - *by Paulo C. T. Souza* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/PCTS-Martini3.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/Introduction_to_Martini3.pdf) -- `Novel applications of Martini 3` - *by Siewert-Jan Marrink* - [[Watch]](https://www.youtube.com/watch?v=A72A9s980BQ) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/SJ-martini3-applications.pdf) +- `Novel applications of Martini 3` - *by Siewert-Jan Marrink* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/SJ-martini_applications.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/SJ-martini3-applications.pdf) -- `Martini ecosystem of tools` - *by Tsjerk Wassenaar* - [[Watch]](https://youtu.be/Gvf6W0fBqwg) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/Martini-Tools.pdf) +- `Martini ecosystem of tools` - *by Tsjerk Wassenaar* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/2021-08-Martini-Tools.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/Martini-Tools.pdf) -- `The MArtini Database (MAD) and web server` - *by Luca Monticelli* - [[Watch]](https://youtu.be/__LDjW2hB5Q) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/MAD_server.pdf) +- `The MArtini Database (MAD) and web server` - *by Luca Monticelli* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/Martini_workshop_2021_MAD.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/MAD_server.pdf) -- `The Martini Lipids` - *by Manuel N. Melo* - [[Watch]](https://youtu.be/cMhlpwoDtg8) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/MN_Melo_Martini_lipids.pdf) +- `The Martini Lipids` - *by Manuel N. Melo* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/MN_Melo_Martini_lipids.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/MN_Melo_Martini_lipids.pdf) -- `Martini 3 Small Molecules` - *by Riccardo Alessandri* - [[Watch]](https://www.youtube.com/watch?v=PfgEx72KxVg) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/2021-09-02_MartiniWorkshop2021_Small_molecules-vFINAL.pdf) +- `Martini 3 Small Molecules` - *by Riccardo Alessandri* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/2021-09-02_MartiniWorkshop2021_Small_molecules.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/2021-09-02_MartiniWorkshop2021_Small_molecules-vFINAL.pdf) -- `Bartender` - *by Raul Mera A.* - [[Watch]](https://youtu.be/e6P79G9Z8r4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/Bartender_RMera.pdf) +- `Bartender` - *by Raul Mera A.* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/Bartender_Raul.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/Bartender_RMera.pdf) -- `Protein models in Martini 3` - *by Sebastian Thallmair* - [[Watch]](https://youtu.be/KDej6wt7-x8) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/M3workshop-01.pdf) +- `Protein models in Martini 3` - *by Sebastian Thallmair* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/GoModels_Sebastian.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/M3workshop-01.pdf) -- `Protein-small molecule binding with Martini 3` - *by Paulo C. T. Souza* - [[Watch]](https://www.youtube.com/watch?v=L-d2VVj5ZXo) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/Protein_Small_molecule_Binding.pdf) +- `Protein-small molecule binding with Martini 3` - *by Paulo C. T. Souza* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/Protein_Small_molecule_Binding.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/Protein_Small_molecule_Binding.pdf) -- `Polymer modeling with Martini 3` - *by Fabian Grünewald* - [[Watch]](https://www.youtube.com/watch?v=SwTT5QY0mgI) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/PolyplyWorkshop2021.pdf) +- `Polymer modeling with Martini 3` - *by Fabian Grünewald* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/Polyply_Fabian.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/PolyplyWorkshop2021.pdf) -- `Titratable Martini` - *by Fabian Grünewald* - [[Watch]](https://www.youtube.com/watch?v=G2V_UTccy-Y) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/TitratableMartiniWorkshop2021.pdf) +- `Titratable Martini` - *by Fabian Grünewald* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/TitratableMartini.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/TitratableMartiniWorkshop2021.pdf) -- `TS2CG` - *by Weria Pezeshkian* - [[Watch]](https://www.youtube.com/watch?v=iRL8wFIuuqE) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/weria_TS2CG.pdf) +- `TS2CG` - *by Weria Pezeshkian* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/TS2CG_Weria.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/weria_TS2CG.pdf) -- `Machine Learning-driven Multiscale Modeling` - *by Helgi I. Ingólfsson* - [[Watch]](https://www.youtube.com/watch?v=n5o9fKeVwuY) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/Martini+workshop+-+MuMMI+-+Ingolfsson.pdf) +- `Machine Learning-driven Multiscale Modeling` - *by Helgi I. Ingólfsson* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/helgi_MuMMI.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/Martini+workshop+-+MuMMI+-+Ingolfsson.pdf) -- `Lipid-protein interactions` - *by Peter Tieleman* - [[Watch]](https://youtu.be/R3TRYUi7x9o) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/Martini-tieleman.pdf) +- `Lipid-protein interactions` - *by Peter Tieleman* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/peter.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/Martini-tieleman.pdf) -- `ProLint` - *by Besian I. Sejdiu* - [[Watch]](https://www.youtube.com/watch?v=_CYrEYkP--g) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/Sejdiu_MartiniWorkshop.pptx.pdf) +- `ProLint` - *by Besian I. Sejdiu* - [[Watch]](https://d3ebrx6qufncts.cloudfront.net/0_Tutorials/Lectures/videos/besian.mp4) [[Slides]](https://cgmartini-library.s3.ca-central-1.amazonaws.com/0_Tutorials/Lectures/pdfs/Sejdiu_MartiniWorkshop.pptx.pdf)