From fa511cc71078b1fcac0bdd033920d07a004dbad7 Mon Sep 17 00:00:00 2001 From: Paolo Avesani Date: Tue, 17 Sep 2024 17:40:09 +0200 Subject: [PATCH] reset to init --- _config.yml | 43 ------------- _data/alumni_bsc.yml | 15 ----- _data/alumni_members.yml | 65 -------------------- _data/alumni_msc.yml | 17 ------ _data/alumni_visitors.yml | 11 ---- _data/news.yml | 5 -- _data/projlist.yml | 39 ------------ _data/publist.yml | 17 ------ _data/team_members.yml | 20 ------ _includes/analytics.html | 10 --- _includes/footer.html | 15 ----- _includes/head.html | 15 ----- _includes/header.html | 22 ------- _includes/news.html | 12 ---- _layouts/default.html | 20 ------ _layouts/gridlay.html | 6 -- _layouts/homelay.html | 12 ---- _layouts/page.html | 14 ----- _layouts/piclay.html | 7 --- _layouts/post.html | 15 ----- _layouts/publications.html | 6 -- _layouts/research.html | 6 -- _layouts/team.html | 7 --- _layouts/textlay.html | 6 -- _pages/404.md | 10 --- _pages/aboutwebsite.md | 50 --------------- _pages/allnews.md | 14 ----- _pages/home.md | 85 -------------------------- _pages/mini_lecture_series.md | 15 ----- _pages/openings.md | 37 ----------- _pages/pictures.md | 78 ----------------------- _pages/publications.md | 63 ------------------- _pages/research.md | 44 ------------- _pages/team.md | 112 ---------------------------------- _plugins/markdown.rb | 23 ------- 35 files changed, 936 deletions(-) delete mode 100644 _config.yml delete mode 100644 _data/alumni_bsc.yml delete mode 100644 _data/alumni_members.yml delete mode 100644 _data/alumni_msc.yml delete mode 100644 _data/alumni_visitors.yml delete mode 100644 _data/news.yml delete mode 100644 _data/projlist.yml delete mode 100644 _data/publist.yml delete mode 100644 _data/team_members.yml delete mode 100644 _includes/analytics.html delete mode 100644 _includes/footer.html delete mode 100644 _includes/head.html delete mode 100644 _includes/header.html delete mode 100644 _includes/news.html delete mode 100644 _layouts/default.html delete mode 100644 _layouts/gridlay.html delete mode 100644 _layouts/homelay.html delete mode 100644 _layouts/page.html delete mode 100644 _layouts/piclay.html delete mode 100644 _layouts/post.html delete mode 100644 _layouts/publications.html delete mode 100644 _layouts/research.html delete mode 100644 _layouts/team.html delete mode 100644 _layouts/textlay.html delete mode 100644 _pages/404.md delete mode 100644 _pages/aboutwebsite.md delete mode 100644 _pages/allnews.md delete mode 100644 _pages/home.md delete mode 100644 _pages/mini_lecture_series.md delete mode 100644 _pages/openings.md delete mode 100644 _pages/pictures.md delete mode 100644 _pages/publications.md delete mode 100644 _pages/research.md delete mode 100644 _pages/team.md delete mode 100644 _plugins/markdown.rb diff --git a/_config.yml b/_config.yml deleted file mode 100644 index 8631222..0000000 --- a/_config.yml +++ /dev/null @@ -1,43 +0,0 @@ -# Welcome to Jekyll! -# -# This config file is meant for settings that affect your whole blog, values -# which you are expected to set up once and rarely need to edit after that. -# For technical reasons, this file is *NOT* reloaded automatically when you use -# 'jekyll serve'. If you change this file, please restart the server process. - -# Site settings -title: NILab -email: avesani@fbk.eu -description: > # this means to ignore newlines until "baseurl:" - Home of the Neuroinformatics Lab at the Fondazione Bruno Kessler, Trento. -baseurl: "" -url: "" - -include: - - .htaccess - - _pages - -sass: - sass_dir: _sass - -# Conversion -markdown: kramdown -highlighter: rouge -lsi: false -excerpt_separator: "\n\n" -incremental: false - - - -# Markdown Processing -kramdown: - input: GFM - hard_wrap: false - auto_ids: true - footnote_nr: 1 - entity_output: as_char - toc_levels: 1..6 - smart_quotes: lsquo,rsquo,ldquo,rdquo - enable_coderay: false - parse_block_html: true # default for kramdown is false. This will enable using Markdown links - diff --git a/_data/alumni_bsc.yml b/_data/alumni_bsc.yml deleted file mode 100644 index 3126fd8..0000000 --- a/_data/alumni_bsc.yml +++ /dev/null @@ -1,15 +0,0 @@ -#- name: Vishnu Saj, Spring 2017 - -#- name: Arjo Andringa, Spring 2016 - -#- name: Joey Braspenning, Spring 2017 - -#- name: Tjerk Benschop, Summer 2017 - -#- name: Margot Leemker, Spring 2017 - -#- name: Sietske Lensen, Spring 2017 - -#- name: Daniëlle van Klink, Spring 2016 - -#- name: Amber Vervloet, Spring 2019 diff --git a/_data/alumni_members.yml b/_data/alumni_members.yml deleted file mode 100644 index 8966d1a..0000000 --- a/_data/alumni_members.yml +++ /dev/null @@ -1,65 +0,0 @@ -- name: Laura Suarez - photo: laura.jpg - duration: Research Scientist at Mila Quebec - info: PhD student - email: - number_educ: 0 - education1: - education2: - education3: - education4: - -- name: Ross Markello - photo: ross.jpg - duration: Data Science Engineer at Octave Biosciences - info: PhD student - email: - number_educ: 0 - education1: - education2: - education3: - education4: - -- name: Golia Shafiei - photo: golia.jpg - duration: Post-doc at U Penn - info: PhD student - email: - number_educ: 0 - education1: - education2: - education3: - education4: - -- name: Ying-Qiu Zheng - photo: yingqiu.jpg - duration: PhD student at Oxford - info: MSc student - email: - number_educ: 0 - education1: - education2: - education3: - education4: - -- name: Bertha Vazquez-Rodriguez - photo: bertha.jpg - duration: Data Science Engineer at Clemex - info: Post-Doc - email: bertha.vazquezrodriguez@mail.mcgill.ca - number_educ: 0 - education1: - education2: - education3: - education4: - -- name: Nykan Mirchi - photo: nykan.jpg - duration: MD student at UofT - info: BSc student - email: - number_educ: 0 - education1: - education2: - education3: - education4: diff --git a/_data/alumni_msc.yml b/_data/alumni_msc.yml deleted file mode 100644 index 0c9e323..0000000 --- a/_data/alumni_msc.yml +++ /dev/null @@ -1,17 +0,0 @@ -#- name: Maarten Leeuwenhoek, Spring 2015 - -#- name: Koen M Bastiaans, Spring 2015 - -#- name: Farshaad Hoeseni, Fall 2015 - -#- name: Oliver Ostojic, Spring 2016 - -#- name: Tjerk Benschop, Spring 2016 - -#- name: Bert Visscher, Fall 2017 - -#- name: Ahmad Jamalzada, Fall 2017 - -#- name: Corne Koks, Fall 2018 - -#- name: Damian Bouwmeester, Summer 2019 diff --git a/_data/alumni_visitors.yml b/_data/alumni_visitors.yml deleted file mode 100644 index 7ce83e6..0000000 --- a/_data/alumni_visitors.yml +++ /dev/null @@ -1,11 +0,0 @@ -#- name: Nikolaos Iliopoulos, Spring 2016 - -#- name: Vitaly Fedoseev, all of 2016 - -#- name: Alexander Vanstone, Spring 2016 - -#- name: Ramakrishna Aluru, Summer 2018 - -#- name: Changwei Zou, Spring 2018 - -#- name: Kemal Demir, Summer 2019 diff --git a/_data/news.yml b/_data/news.yml deleted file mode 100644 index e643c23..0000000 --- a/_data/news.yml +++ /dev/null @@ -1,5 +0,0 @@ -- date: 22 July 2024 - headline: "Gabriele Amorosino has been awarded cum laude a PhD in Cognitive and BrainSciences from the University of Trento. Doctoral thesis: “Deep Learning for Brain Structural Connectivity Analysis: from Tissue Segmentation to Tractogram Alignment”." - -- date: 16 May 2024 - headline: "Paolo Avesani gives the talk “Artificial Intelligence and Neuroscience: a Strange Loop” at the event dedicated to AI and neuroscience organized by Accademia degli Agiati in Rovereto." \ No newline at end of file diff --git a/_data/projlist.yml b/_data/projlist.yml deleted file mode 100644 index b6f2a97..0000000 --- a/_data/projlist.yml +++ /dev/null @@ -1,39 +0,0 @@ -- title: "Neuroimaging Data Science" - image: res_neuromaps.png - description: Imaging technologies are increasingly used to generate high-resolution reference maps of brain structure and function. Modern scientific discovery relies on making comparisons between new maps (e.g. task activations, group structural differences) and these reference maps. We develop open tools for accessing, transforming, and analyzing structural and functional brain annotations. - highlight: 1 - -- title: "Annotated Connectomics" - image: res_annot_vince.png - description: Brain regions differ in terms of their cytoarchitecture, neurotransmitter receptor profiles, gene expression, temporal dynamics, etc. We reconstruct “annotated” connectomes, enriched with features. The goal of this work is to understand how microscopic properties and macroscale network embedding interact to support the emergence of global dynamics and patterned neural activity. - highlight: 1 - -- title: "Structure-Function Coupling" - image: res_scfc_2.png - description: Networks of white matter fibers projections form polyfunctional neural circuits that support cognition. We study how the structural organization of the brain supports emergent neural dynamics. We are primarily interested in how structure-function coupling varies across the cortical hierarchy, how it depends on local micro-architecture, and how it varies across time. - highlight: 1 - -- title: "Neuromorphic Networks" - image: res_rc.png - description: How does connectome architecture shape computation? We are constructing bio-instantiated artificial neural networks by implementing real biological brain connectomes as artificial networks. Using realistic biophysical dynamics and connection patterns, we are developing neuromorphic reservoir computers - connectomes that can be trained to perform cognitive tasks, such as working memory, language comprehension, spatial navigation. - highlight: 1 - -- title: "Disease Propagation" - image: res_agent.png - description: Axonal fibers provide a scaffold through which misfolded pathogenic proteins spread, shaping the course and expression of neurodegenerative diseases such as Parkinson’s (PD) and Alzheimer’s (AD) disease. We develop generative models that integrate connectivity (diffusion MRI), co-activation (functional MRI) and genetics (mRNA transcription) to predict the evolution of neurodegenerative diseases. - highlight: 1 - -- title: "Statistical Connectomics" - image: res_stat.png - description: An emerging theme in network neuroscience emphasizes links between multiscale structural and functional features of the brain, and the rich cognitive-behavioural repertoire they support. We develop multivariate statistical learning techniques that map high-dimensional brain imaging modalities to phenotypic variation in healthy and clinical populations. - highlight: 1 - -- title: "Null Models" - image: res_null.png - description: How do we demonstrate that a brain network feature is statistically unexpected? Null models are an inferential tool to assess the presence or magnitude of features, by selectively preserving specific architectural properties of brain networks while randomizing others. We develop and systematically benchmark null models to understand the architecture of brain networks. - highlight: 1 - -- title: "Network Communication" - image: res_comm.png - description: A fundamental question in connectomics is how the organization of brain networks supports neural signaling. Using anatomically realistic brain networks derived from imaging and tracing, we develop computational models of inter-regional communication. We use these models to characterize how communication processes unfold on structural brain networks and how they support cognitive capacity. - highlight: 1 diff --git a/_data/publist.yml b/_data/publist.yml deleted file mode 100644 index 4f70221..0000000 --- a/_data/publist.yml +++ /dev/null @@ -1,17 +0,0 @@ -- title: "Integrating direct electrical brain stimulation with the human connectome" - image: - description: - authors: Coletta, L, Avesani, P, Zigiotto, L, Venturini, M, Annicchiarico, L, Vavassori, L, Ng, S, Duffau, H, Sarubbo, S - link: - url: https://doi.org/10.1093/brain/awad402 - display: Brain (2024) - highlight: 0 - -- title: "brainlife.io: A decentralized and open source cloud platform to support neuroimaging research" - image: - description: - authors: Soichi Hayashi et al. - link: - url: https://doi.org/10.1038/s41592-024-02237-2 - display: Nature Methods (2024) - highlight: 0 \ No newline at end of file diff --git a/_data/team_members.yml b/_data/team_members.yml deleted file mode 100644 index 43a0eed..0000000 --- a/_data/team_members.yml +++ /dev/null @@ -1,20 +0,0 @@ -- name: Paolo Avesani - photo: #bratislav.jpg - info: Principal Investigator - email: avesani@fbk.eu - number_educ: 0 - education1: - education2: - education3: - education4: - education5: - -- name: Ludovico Coletta - photo: #zhen-qi.jpg - info: Post-doc fellow - email: lcoletta@fbk.eu - number_educ: 0 - education1: - education2: - education3: - education4: diff --git a/_includes/analytics.html b/_includes/analytics.html deleted file mode 100644 index 27670bf..0000000 --- a/_includes/analytics.html +++ /dev/null @@ -1,10 +0,0 @@ - diff --git a/_includes/footer.html b/_includes/footer.html deleted file mode 100644 index 3147627..0000000 --- a/_includes/footer.html +++ /dev/null @@ -1,15 +0,0 @@ - - - - diff --git a/_includes/head.html b/_includes/head.html deleted file mode 100644 index 8377eab..0000000 --- a/_includes/head.html +++ /dev/null @@ -1,15 +0,0 @@ - - - - - {% if page.title %}{{ page.title | escape }}{% else %}{{ site.title | escape }}{% endif %} - - - - - -{% if jekyll.environment == 'production' %} -{% include analytics.html %} -{% endif %} - - diff --git a/_includes/header.html b/_includes/header.html deleted file mode 100644 index e7d8a23..0000000 --- a/_includes/header.html +++ /dev/null @@ -1,22 +0,0 @@ - diff --git a/_includes/news.html b/_includes/news.html deleted file mode 100644 index 2fb6bd9..0000000 --- a/_includes/news.html +++ /dev/null @@ -1,12 +0,0 @@ - -
-

News

- -{% for article in site.data.news limit:9 %} -{{ article.date }} -

{{ article.headline }}

-{% endfor %} - -

... see all News

- -
diff --git a/_layouts/default.html b/_layouts/default.html deleted file mode 100644 index df89cb6..0000000 --- a/_layouts/default.html +++ /dev/null @@ -1,20 +0,0 @@ - - - - {% include head.html %} - - - - {% include header.html %} - -
-
- {{ content }} -
-
- - {% include footer.html %} - - - - diff --git a/_layouts/gridlay.html b/_layouts/gridlay.html deleted file mode 100644 index 4560794..0000000 --- a/_layouts/gridlay.html +++ /dev/null @@ -1,6 +0,0 @@ ---- -layout: default ---- -
- {{ content }} -
diff --git a/_layouts/homelay.html b/_layouts/homelay.html deleted file mode 100644 index 2c0ed3a..0000000 --- a/_layouts/homelay.html +++ /dev/null @@ -1,12 +0,0 @@ ---- -layout: default ---- - -
-

Welcome to the Neuroinformatics Lab

- - {{ content }} -
-
- {% include news.html %} -
diff --git a/_layouts/page.html b/_layouts/page.html deleted file mode 100644 index ce233ad..0000000 --- a/_layouts/page.html +++ /dev/null @@ -1,14 +0,0 @@ ---- -layout: default ---- -
- -
-

{{ page.title }}

-
- -
- {{ content }} -
- -
diff --git a/_layouts/piclay.html b/_layouts/piclay.html deleted file mode 100644 index 3a7ddca..0000000 --- a/_layouts/piclay.html +++ /dev/null @@ -1,7 +0,0 @@ ---- -layout: default ---- - -
- {{ content }} -
diff --git a/_layouts/post.html b/_layouts/post.html deleted file mode 100644 index 3a0fb52..0000000 --- a/_layouts/post.html +++ /dev/null @@ -1,15 +0,0 @@ ---- -layout: default ---- -
- -
-

{{ page.title }}

-

{% if page.author %} • {% endif %}

-
- -
- {{ content }} -
- -
diff --git a/_layouts/publications.html b/_layouts/publications.html deleted file mode 100644 index ac4e92c..0000000 --- a/_layouts/publications.html +++ /dev/null @@ -1,6 +0,0 @@ ---- -layout: default ---- -
- {{ content }} -
diff --git a/_layouts/research.html b/_layouts/research.html deleted file mode 100644 index 1fb65e7..0000000 --- a/_layouts/research.html +++ /dev/null @@ -1,6 +0,0 @@ ---- -layout: default ---- -
- {{ content }} -
diff --git a/_layouts/team.html b/_layouts/team.html deleted file mode 100644 index c17f2ce..0000000 --- a/_layouts/team.html +++ /dev/null @@ -1,7 +0,0 @@ ---- -layout: default ---- -
- {{ content }} -
- diff --git a/_layouts/textlay.html b/_layouts/textlay.html deleted file mode 100644 index a2bbf5e..0000000 --- a/_layouts/textlay.html +++ /dev/null @@ -1,6 +0,0 @@ ---- -layout: default ---- -
- {{ content }} -
diff --git a/_pages/404.md b/_pages/404.md deleted file mode 100644 index 4dfa484..0000000 --- a/_pages/404.md +++ /dev/null @@ -1,10 +0,0 @@ ---- -title: "Page Not Found" -layout: default -excerpt: "Page not found. Your pixels are in another canvas." -sitemap: false -permalink: /404.html ---- - -Sorry, but the page you were trying to view does not exist. - diff --git a/_pages/aboutwebsite.md b/_pages/aboutwebsite.md deleted file mode 100644 index bd18ba1..0000000 --- a/_pages/aboutwebsite.md +++ /dev/null @@ -1,50 +0,0 @@ ---- -title: "About the website" -layout: textlay -excerpt: "About the website." -sitemap: false -permalink: /aboutwebsite.html ---- - -# Use this website as a template for your academic research group - -This website is powered by [Jekyll](https://jekyllrb.com) and uses some [Bootstrap](http://www.getbootstrap.com) and [Bootswatch](http://www.bootswatch.com). We tried to make it simple yet adaptable, so that it is easy for you to re-use it for your purpose. - -### Getting started -All pages are written in [markdown](https://github.com/adam-p/markdown-here/wiki/Markdown-Cheatsheet) for easy editing, and [Jekyll](https://jekyllrb.com) uses Liquid for the data-driven pages. The publicaion list, news items, and group members are stored as `.yml` data sheets (plain text) in the `_data folder`, so that one can update the website easily. The pages are in the `_pages` folder. Updating and maintaining is easy using [Github](http://www.github.com) (not worldpress-easy, but there are other advantages (see e.g. [this](https://www.taniarascia.com/make-a-static-website-with-jekyll/), or [this](http://www.webdesignerdepot.com/2015/11/jekyll-against-the-rest-of-the-world/)). [Jekyll](https://jekyllrb.com) takes all the markdown and data files, and creates beautiful `html` files in the `_site` folder. - -If you never used [Jekyll](https://jekyllrb.com), read the [wikipedia article](https://en.wikipedia.org/wiki/Jekyll_(software)) article and check out [their website](https://jekyllrb.com). Same for [Github](http://www.github.com), which will host your first website draft. - -Create and open a github account, go to [our repository](https://github.com/allanlab/allanlab), and click 'fork'. This is now your copy of the website, and you can change and adapt it as you want. You don't have to link to us or mention us (but of course we appreciate it). Then change the name of the repository to "your_username" and the name of the branch to "gh-pages". Your website is now automatically published under *your_username.github.io/your_username/*. Except that it probably still looks like our website. - -To modify the webpage, you can either do everything on on github.com (go to a file, click "edit", then "commit", "push"), or install [Jekyll](https://jekyllrb.com) on your computer and play with your local copy that you sync with the branch on github.com. The former is much easier in the beginning, but a bit less convenient once you start rewriting everythint. To get it to work on your computer (and to learn a bit more about [Jekyll](https://jekyllrb.com)), [here](https://www.taniarascia.com/make-a-static-website-with-jekyll/) and [here](https://scotch.io/tutorials/getting-started-with-jekyll-plus-a-free-bootstrap-3-starter-theme) are tutorials on how to use it and how set it up locally. Also, consider using the [Github desktop app](http://www.desktop.github.com), I found it helpful. - -### Customization -Now let's make this *your* website. - -First, go to the `news.ylm`, `publist.ylm`, and `team.ylm` files in the `_data` folder and insert your own data into the data fields. Watch out: [Jekyll](https://jekyllrb.com) is quite strict about extra or missing spaces etc. Adhere to the format. In the beginning, test each change: commit, push, and check the published website. - -For publications, you can add a "1" in the highlight field, then it will be featured prominently. You can add important news items (red, "news1"), and less important news items (blue, "news2"). - -For the news items, just keep adding them. The first 10 will be displayed on the 'home' page. - -For the `team.ylm` file - -Next, change the content of all files in the `_pages` folder. To change the title in the homepage, go to `homelay.html` in the `_layout` folder. - -Lastly, change the footer and perhaps header appropriately (in `_include`). - -You might also want to change the style or theme. I imported style files (in sass) from Bootstrap/Bootwatch, you can replace them with your own (in the `_sass directory`). For small changes, just work on the override stuff in the `main.sass` file in the `CSS` folder. Or change some variables in the `_variables.sass` file, like the background color etc. - -As said, [Jekyll](https://jekyllrb.com) takes all the markdown and data files, and creates beautiful `html` files in the `_site` folder.In the end, either upload these files to your server, or buy yourself a domain and check the instructions on github on how to host it there. - -### Copyright / credit - -You can use this template as you please. You don't have to link to us or mention us (but of course we appreciate it). We also welcome it if you send us an email with a link to your website, perhaps we'll publish a list here at some point. - -Comments welcome. - -Code released under the MIT License. - - - diff --git a/_pages/allnews.md b/_pages/allnews.md deleted file mode 100644 index 4252cc2..0000000 --- a/_pages/allnews.md +++ /dev/null @@ -1,14 +0,0 @@ ---- -title: "News" -layout: textlay -excerpt: "NILab at Fondazione Bruno Kessler." -sitemap: false -permalink: /allnews.html ---- - -# News - -{% for article in site.data.news %} -

{{ article.date }}
-{{ article.headline }}

-{% endfor %} diff --git a/_pages/home.md b/_pages/home.md deleted file mode 100644 index 0abaf11..0000000 --- a/_pages/home.md +++ /dev/null @@ -1,85 +0,0 @@ ---- -title: "NILab - Home" -layout: homelay -excerpt: "Neuroinformatics Lab at FBK." -sitemap: false -permalink: / ---- - -Understanding the brain is one of the big challenges of the third millennium. Our leverage is a joint effort of neuroscientists, clinicians and computer scientists. The improvement of neuroimaging analysis is our contribution to help deal with brain disorders. Artificial Intelligence is the way to learn from brain data. - - - - - -[//]: # "We use neuroimaging (MRI, M/EEG, PET) to map and model patterns of neural connectivity. We pursue several research themes, from modeling communication processes on anatomical networks, to statistical models of network architecture and disease propagation (see [Research](research))." - -[//]: # "We are located at the Montreal Neurological Institute at McGill University, the birthplace of cognitive neuroscience and home to Penfield, Milner, Jasper and others. We exchange ideas and work with our colleagues in the [McConnell Brain Imaging Centre](https://www.mcgill.ca/bic/)." - -[//]: # "We are grateful for funding from Canadian Institutes of Health Research ([CIHR](http://www.cihr-irsc.gc.ca/)), the Natural Sciences and Engineering Council of Canada ([NSERC](http://www.nserc-crsng.gc.ca)), the Canada Research Chairs Program ([CRC](http://www.chairs-chaires.gc.ca/)), [Brain Canada](https://braincanada.ca/), Fonds de Recherché du Quebec ([FRQ](http://www.frq.gouv.qc.ca/)), and Healthy Brains For Healthy Lives (([HBHL](https://www.mcgill.ca/hbhl/))." - -
- - - - - -
diff --git a/_pages/mini_lecture_series.md b/_pages/mini_lecture_series.md deleted file mode 100644 index 907898f..0000000 --- a/_pages/mini_lecture_series.md +++ /dev/null @@ -1,15 +0,0 @@ ---- -title: "Allan Lab - AOA" -layout: textlay -excerpt: "AOA" -sitemap: false -permalink: /aoa.html ---- - -# Calendar - -Every Tuesday at 9:30 in HL124. - -05.09.2017 Aarts - -dfghjkl diff --git a/_pages/openings.md b/_pages/openings.md deleted file mode 100644 index 4a17d5b..0000000 --- a/_pages/openings.md +++ /dev/null @@ -1,37 +0,0 @@ ---- -title: "Allan Lab - Vacancies" -layout: textlay -excerpt: "Openings" -sitemap: false -permalink: /vacancies ---- - -# Open positions - -We are always looking for new group members with passion, talent, and grit! - -You will have the chance to work on the grand challenges of condensed matter physics, often at the interface of instrumental design and new physics. You will be involved in determining the important and interesting questions, creating and improving instrumental setups, performing measurements, and making discoveries. - -### Current open positions - -You find the current job openings here: -[Opening 1]({{ site.baseurl }}/downloads/GeneralPostdoc_2019_v01.pdf), -[Opening 2]({{ site.baseurl }}/downloads/PPMS_PhD_2019_v01.pdf). - -It might be interesting to look at some past job advertisements. While the projects keep changing, the themes are still roughly the same. You can download them [here]({{ site.baseurl }}/downloads/PD.pdf), [here]({{ site.baseurl }}/downloads/PHD1.pdf), or [here]({{ site.baseurl }}/downloads/PHD2.pdf). - -### Applications for PhD and Postdoc positions -If you are interested in working with us as a PhD student or postdoc, please send me an [email](mailto:milan.allan@gmail.com). State briefly why you are interested and attach a CV, including information about the grades you had as an undergraduate. No need for a separate cover letter or certificates. **Important**: please insert _"Application PhD"_ or _"Application Postdoc"_ in the subject line. If you are applying to a specific advertisement, note this in your email. - -There are postdoc scholarship available. I'd be happy to support you after you apply to our group. Take a look at the [veni fellowship](http://www.nwo.nl/en/funding/our-funding-instruments/nwo/innovational-research-incentives-scheme/veni/index.html) or the [Marie Curie fellowship](http://ec.europa.eu/research/mariecurieactions/about-msca/actions/if/index_en.htm). - -### Master projects for Leiden University students -If you are a Master student at Leiden University looking for a Master project, contact me (or any group member) per email or stop by my office. - -### Bsc / Master students from elsewhere -If you are interested in pursuing a Master degree at Leiden University, see [mastersinleiden.nl](http://www.mastersinleiden.nl/programmes/physics/en/introduction). Sometimes, we take master students or summer interns if we get exceptional applicants (this usually means very good grades and a personal recommendation). - - -
- -
diff --git a/_pages/pictures.md b/_pages/pictures.md deleted file mode 100644 index 5956a68..0000000 --- a/_pages/pictures.md +++ /dev/null @@ -1,78 +0,0 @@ ---- -title: "Allan Lab - Pictures" -layout: piclay -excerpt: "Allan Lab -- Pictures" -permalink: /pictures/ ---- - -# Pictures -Jump to: [Leiden](#leiden), [ETHZ](#ethz), [Cornell](#cornell), [St Andrews](#st-andrews) - - -## Leiden - -#### Timelapse of our STM assembling [(see LION news item)](https://www.physics.leidenuniv.nl/index.php?id=11573&news=867&type=lion&ln=EN): - - -#### Gallery -(Right-click *'view image'* to see a larger image.) -{% assign number_printed = 0 %} -{% for pic in site.data.pictures_Leiden %} - -{% assign even_odd = number_printed | modulo: 4 %} - -{% if even_odd == 0 %} -
-{% endif %} - -
- -
- -{% assign number_printed = number_printed | plus: 1 %} - -{% if even_odd > 2 %} -
-{% endif %} - - -{% endfor %} - -{% assign even_odd = number_printed | modulo: 4 %} -{% if even_odd == 1 %} - -{% endif %} - -{% if even_odd == 2 %} - -{% endif %} - -{% if even_odd == 3 %} - -{% endif %} - -

 

- -First advertisement. -
- -
- - -## ETHZ -From the [group of Andreas Wallraff](http://www.qudev.ethz.ch/). -
- -
- -## Cornell -From the [group of Seamus JC Davis](http://davisgroup.lassp.cornell.edu). -
- -
- -## St Andrews -From the [group of Felix Baumberger](http://dqmp.unige.ch/baumberger/) (now at University of Geneva). -
- -
diff --git a/_pages/publications.md b/_pages/publications.md deleted file mode 100644 index ba6e2a8..0000000 --- a/_pages/publications.md +++ /dev/null @@ -1,63 +0,0 @@ ---- -title: "NetNeuroLab - Publications" -layout: gridlay -excerpt: "NetNeuroLab -- Publications." -sitemap: false -permalink: /publications/ ---- - - -# Publications - -## Highlights - -For a full list see [below](#full-list) or go to [Google Scholar](https://scholar.google.com/citations?hl=it&user=5g4UY4MAAAAJ&view_op=list_works&sortby=pubdate) or [PubMed](https://pubmed.ncbi.nlm.nih.gov/?term=Avesani+P&cauthor_id=27747500). Code is available on our [GitHub repo](https://github.com/FBK-NILab). - -{% assign number_printed = 0 %} -{% for publi in site.data.publist %} - -{% assign even_odd = number_printed | modulo: 2 %} -{% if publi.highlight == 1 %} - -{% if even_odd == 0 %} -
-{% endif %} - -
-
- {{ publi.title }} - -

{{ publi.description }}

-

{{ publi.authors }}

-

{{ publi.link.display }}

-

{{ publi.news1 }}

-

{{ publi.news2 }}

-
-
- -{% assign number_printed = number_printed | plus: 1 %} - -{% if even_odd == 1 %} -
-{% endif %} - -{% endif %} -{% endfor %} - -{% assign even_odd = number_printed | modulo: 2 %} -{% if even_odd == 1 %} - -{% endif %} - -

 

- - -## Full List - -{% for publi in site.data.publist %} - - {{ publi.title }}
- {{ publi.authors }}
{{ publi.link.display }} - -{% endfor %} - diff --git a/_pages/research.md b/_pages/research.md deleted file mode 100644 index 06f0dc1..0000000 --- a/_pages/research.md +++ /dev/null @@ -1,44 +0,0 @@ ---- -title: "NetNeuroLab - Research" -layout: textlay -excerpt: "NetNeuroLab - Research" -sitemap: false -permalink: /research/ ---- - -# Research - - -{% assign number_printed = 0 %} -{% for proj in site.data.projlist %} - -{% assign even_odd = number_printed | modulo: 2 %} -{% if proj.highlight == 1 %} - -{% if even_odd == 0 %} -
-{% endif %} - -
-
- {{ proj.title }} - -

{{ proj.description }}

-
-
- -{% assign number_printed = number_printed | plus: 1 %} - -{% if even_odd == 1 %} -
-{% endif %} - -{% endif %} -{% endfor %} - -{% assign even_odd = number_printed | modulo: 2 %} -{% if even_odd == 1 %} - -{% endif %} - -

 

diff --git a/_pages/team.md b/_pages/team.md deleted file mode 100644 index cd3e745..0000000 --- a/_pages/team.md +++ /dev/null @@ -1,112 +0,0 @@ ---- -title: "NILab - Team" -layout: gridlay -excerpt: "NILab: Team members" -sitemap: false -permalink: /team/ ---- - -# Group Members - -The lab is a diverse team interested in connectomics and neuroimaging data science. We are looking to recruit more graduate students and postdocs with backgrounds in engineering, statistics, physics and life sciences. - - -Jump to [team](#team) or [alumni](#alumni). - -## Team -{% assign number_printed = 0 %} -{% for member in site.data.team_members %} - -{% assign even_odd = number_printed | modulo: 2 %} - -{% if even_odd == 0 %} -
-{% endif %} - -
- -

{{ member.name }}

- {{ member.info }}
<{{ member.email }}> -
    - - {% if member.number_educ == 1 %} -
  • {{ member.education1 }}
    • - {% endif %} - - {% if member.number_educ == 2 %} -
  • {{ member.education1 }}
    • -
  • {{ member.education2 }}
    • - {% endif %} - - {% if member.number_educ == 3 %} -
  • {{ member.education1 }}
    • -
  • {{ member.education2 }}
    • -
  • {{ member.education3 }}
    • - {% endif %} - - {% if member.number_educ == 4 %} -
  • {{ member.education1 }}
    • -
  • {{ member.education2 }}
    • -
  • {{ member.education3 }}
    • -
  • {{ member.education4 }}
    • - {% endif %} - - {% if member.number_educ == 5 %} -
  • {{ member.education1 }}
    • -
  • {{ member.education2 }}
    • -
  • {{ member.education3 }}
    • -
  • {{ member.education4 }}
    • -
  • {{ member.education5 }}
    • - {% endif %} - -
-
- -{% assign number_printed = number_printed | plus: 1 %} - -{% if even_odd == 1 %} -
-{% endif %} - -{% endfor %} - -{% assign even_odd = number_printed | modulo: 2 %} -{% if even_odd == 1 %} - -{% endif %} - - - - -## Alumni - -{% assign number_printed = 0 %} -{% for member in site.data.alumni_members %} - -{% assign even_odd = number_printed | modulo: 2 %} - -{% if even_odd == 0 %} -
-{% endif %} - -
- -

{{ member.name }}

- {{ member.info }}
Now: {{ member.duration }} -
    - -
-
- -{% assign number_printed = number_printed | plus: 1 %} - -{% if even_odd == 1 %} -
-{% endif %} - -{% endfor %} - -{% assign even_odd = number_printed | modulo: 2 %} -{% if even_odd == 1 %} - -{% endif %} diff --git a/_plugins/markdown.rb b/_plugins/markdown.rb deleted file mode 100644 index 727bf40..0000000 --- a/_plugins/markdown.rb +++ /dev/null @@ -1,23 +0,0 @@ -=begin - Jekyll tag to include Markdown text from _includes directory preprocessing with Liquid. - Usage: - {% markdown %} - Dependency: - - kramdown -=end -module Jekyll - class MarkdownTag < Liquid::Tag - def initialize(tag_name, text, tokens) - super - @text = text.strip - end - require "kramdown" - def render(context) - tmpl = File.read File.join Dir.pwd, "_includes", @text - site = context.registers[:site] - tmpl = (Liquid::Template.parse tmpl).render site.site_payload - html = Kramdown::Document.new(tmpl).to_html - end - end -end -Liquid::Template.register_tag('markdown', Jekyll::MarkdownTag)