Skip to main content

2017: Research Summary

Even though the passing of the year is more or less an arbitrary date it's a good opportunity to give a status update on various activities and projects I have been involved in this year. Here's a brief summary of 2017.

Brain Imaging Data Structure (BIDS)

Since the BIDS Specification version 1.0.0 and the accompanying Nature Scientific Data paper were published last year we have been focusing on three things: stability, sustainable growth, and the software ecosystem.
Stability meant that we had to be very careful not to break backward compatibility even though many great ideas for BIDS 2.0 have been submitted. It also means that we focused on reaching out to new communities: I gave BIDS tutorials in London, Oxford, Birmingham, Glasgow and Chapel Hill this year and Dora Hermes published the BIDS Starter Kit (a super handy resource with tutorials and code snippets). 
Sustainable growth translated into adopting a system of BIDS Extension Proposals (BEPs) and providing a BIDS Contributor Guide. I’m very proud to report that we have now 18 BEPs each with  great leaders. It’s worth highlighting the MEG BEP (lead by Guiomar Niso) that is close to being merged into the main spec (see this preprint for more details) as well as iEEG BEP (lead by Dora Hermes and Chris Holdgraf) and EEG BIDS (spontaneously coordinated during this years OHBM by Cyril Pernet).
Finally, a lot of work has been put into the BIDS software ecosystem. pybids (the python BIDS query library maintained by Tal Yarkoni) has benefited from 39 pull requests this year. Similarly, the bids-validator (a very useful tool to check if your dataset is BIDS compatible) witnessed 66 pull requests this year.
Work on BIDS is as always very collaborative - you can see the list of all contributors here.

BIDS Apps

Even though the idea of portable (self-contained) data processing pipelines that take BIDS datasets as inputs - BIDS Apps - was born in 2016 the paper was only published (in PLoS Computational Biology) this year. We also saw 5 new apps added to the collection: tracula (by Franz Liem), ANTs Cortical Thickness (by yours truly), DPARSF (by Chao-Gao Yan), afni_proc (by Dylan Nielson), and BrainsSuite (by Yuen Kim).
We are always on the lookout for new apps - so if you are developing a neuroimaging pipeline please get in touch.

MRIQC

Due to the amazing effort by Oscar Esteban the MRIQC paper was published this year. We showed how different QC metrics can be used to automatically classify the quality of T1w images. In contrast to similar studies in the past, our classifier was tested on a new unseen site and still yield statistically significant accuracy. MRIQC is so much more than just T1w quality metrics - it’s also a great tool for visually diagnosing BOLD images.
This year we have added a new exciting feature - crowdsourcing of the quality metrics. Each time anyone runs MRIQC (unless they opt out) anonymized quality metrics of the input scans are deposited in an open database. This will enable us to create normative distributions of QC metrics in the future.

FMRIPREP


Our robust fMRI preprocessing tool - FMRIPREP - grew a lot this year and reached a major milestone: a 1.0.0 version release. Kudos go to main developers Oscar Esteban and Chris Markiewicz as well as many contributors. We’ve been working hard this year on making FMRIPREP robust - this means it should perform well no matter what data you throw at it. To achieve this goal we had to test it on many datasets! The effort seems to be paying off - the first preprint (from and outside group) using FMRIPREP has been published this year.

OpenNeuro

Screenshot_18
Tying all of this together (BIDS and BIDS Apps including MRIQC and FMRIPREP) is our new platform for data sharing and data processing - OpenNeuro. Building on the success of OpenfMRI we created a service that makes sharing raw data easy and provides free data processing for those willing to make their datasets publicly available (after 3 years long grace period). This project has been two years in the making and was finally launched this year in June. Since then we saw a steady increase in the number of users as well as first few dataset shared via the platform. We are currently serving 16 BIDS Apps for processing structural, diffusion, and functional data. Kudos for making OpenNeuro happen go to the amazing team of developers at Squishy Media. If you have not tried OpenNeuro yet you should give it a go - the interface is really slick!

OpenfMRI

OpenfMRI
While we are still ironing out all the kinks in OpenNeuro, its predecessors - OpenfMRI - is still accepting datasets. This year we have published 33 new datasets and crossed an important threshold of hosting data from over 3,000 participants. All of this was possible due to the hard work of our data curators: Suyash Bhogowar and Joe Wexler.

NeuroVault

triangle with equal sides
New projects have absorbed most of my time this year, but in the meantime, NeuroVault - the repository for statistical maps and brain atlases - has been serving the community with great new data sharing, visualization, and data analysis features. This year NeuroVault users deposited 10,654 new maps. What is more important we are also seeing more reuse of the data deposited in NeuroVault. I worthy example is a study by Taylor Bolt (from Lucina Uddin's group) published this year in Journal of Neuroscience that used maps from 17 studies found in NeuroVault.

Travel, lectures, teaching

This year I’ve been away from home for 94 days traveling a total of 151,380 km (almost 4 times around the world). It’s a little less than usual but it did allow me to attend some great conferences (OHBM in Vancouver was the highlight), as well as teach at multiple workshops: Neurohackweek, UK Software Reproducibility workshop, Better Science SANS satellite and UNC fMRI workshop. I feel guilty about my carbon footprint, but it still feels that working with people in person is hard to replace.

Other



The bad stuff.

Watching social media at the end of the year, one can get an impression that everyone is doing fantastically and achieving amazing things without a sweat. For me, this year wasn't all roses and watching great projects yield their fruits. There was also a lot of bad stuff: rejections, mistakes, disappointments, regrets, failures etc. I don't feel it's useful to get into any details, but it's worth remembering that very rarely (for anyone) things are 100% brilliant.

So that was 2017. Let's see what 2018 will bring!



Comments

  1. This comment has been removed by the author.

    ReplyDelete
  2. I have been reading for the past two days about your blogs and topics, still on fetching! Wondering about your words on each line was massively effective. Techno-based information has been fetched in each of your topics. Sure it will enhance and fill the queries of the public needs. Feeling so glad about your article. Thanks…!
    selenium training in chennai
    selenium online courses best selenium online training
    selenium testing training
    selenium classes

    ReplyDelete
  3. Nice post.it is really interesting to read this article...Find latest Sarkari Job for freshers & experienced graduates across India & get free Naukri/Job alerts on recent & upcoming Sarkari jobs vacancies through Sarkari Job, as a jobs source we provides present and latest recruitment details for all Government/Sarkari Naukri across India.

    ReplyDelete
  4. Thanks for sharing this information. FreeJobAlert is one of the best website to get Latest Govt Jobs Information and to know more about FreeJobAlert visit official website.
    I liked Your Article. Post these types of Article on regular basis.

    ReplyDelete
  5. Thanks for sharing this information. It is one of the best website to get Latest Govt Jobs Information and to know more about Rojgar Nirman visit official website.
    I liked Your Article.

    ReplyDelete
  6. I have a mission that I’m just now working on, and I have been at the look out for such information.

    Data Science Training

    ReplyDelete
  7. Terrific post thoroughly enjoyed reading the blog and more over found to be the tremendous one. In fact, educating the participants with it's amazing content. Hope you share the similar content consecutively.

    ai course in bhilai

    ReplyDelete
  8. Stupendous blog huge applause to the blogger and hoping you to come up with such an extraordinary content in future. Surely, this post will inspire many aspirants who are very keen in gaining the knowledge. Expecting many more contents with lot more curiosity further.

    Digital Marketing Course

    ReplyDelete
  9. Thanks for sharing content. It is important content about python learning.

    python course london

    ReplyDelete
  10. Nice information, it is really useful for me. Ogen Infosystem is a leading website designing and SEO Service provider in Delhi, India.
    Web Designing Company in Delhi

    ReplyDelete
  11. Amazing Article ! I would like to say thank you for the efforts you had made for writing this awesome article. This article inspired me to read more your blogs. keep it up.

    Affiliate Marketing Training In Telugu
    Affiliate Marketing Means In Telugu
    Digital Marketing Training In Telugu
    Blogging In Telugu
    Podcast Meaning In telugu
    SEO Meaning In Telugu
    1000 Social BookMarking Sites List

    ReplyDelete
  12. With special privileges and services, UEFA BET offers opportunities for small capitalists. Together ufa with the best websites that collect the most games With a minimum deposit starting from just 100 baht, you are ready to enjoy the fun with a complete range of betting that is available within the website

    ufabet , our one another option We are a direct website, not through an agent, where customers can have great confidence without deception The best of online betting sites is that our Ufa will give you the best price

    หาคุณกำลังหาเกมส์ออนไลน์ที่สามารถสร้างรายได้ให้กับคุณ เรามีเกมส์แนะนำ เกมยิงปลา รูปแบบใหม่เล่นง่ายบนมือถือ คาสิโนออนไลน์ บนคอม เล่นได้ทุกอุปกรณ์รองรับทุกเครื่องมือ มีให้เลือกเล่นหลายเกมส์ เล่นได้ทั่วโลกเพราะนี้คือเกมส์ออนไลน์แบบใหม่ เกมยิงปลา

    อีกทั้งเรายังให้บริการ เกมสล็อต ยิงปลา แทงบอลออนไลน์ รองรับทุกการใช้งานในอุปกรณ์ต่าง ๆ HTML5 คอมพิวเตอร์ แท็บเล็ต สมาทโฟน คาสิโนออนไลน์ และมือถือทุกรุ่น เล่นได้ตลอด 24ชม. ไม่ต้อง Downloads เกมส์ให้ยุ่งยาก ด้วยระบบที่เสถียรที่สุดในประเทศไทย

    ReplyDelete
  13. Probably the most genuine football betting UFABET that's over and above description Find fun, excitement and excitement with slot video games, hundred no cost acknowledgement, fast withdrawal. In case you would like to relax slots for cash No need to deposit a lot, without minimum, without need to talk about, squander time simply because UFABET is really reduced, paid heavily, a number of good promotions are waiting for you. Ready to assure enjoyable, no matter if it is Joker SlotXo fruit slot, we can telephone call it an internet slot internet site for you especially. Able to relax Like the support team which is going to facilitate slot formulas as well as strategies of actively playing So you can be sure that every moment of fun and pleasure We'll be there for you to provide the customers of yours the best appearance and also total satisfaction.
    บาคาร่า
    สล็อต
    ufa
    แทงบอล

    ReplyDelete
  14. Fantastic website! I'd want to express my gratitude for the time and effort you put into producing this article. I expect the same level of excellence from you in the future. I wanted to express my gratitude for the excellent website! Thank you for sharing your knowledge.

    digital marketing training in hyderabad
    digital marketing course in ameerpet
    digital marketing course training in hyderabad ameerpet

    ReplyDelete
  15. This article will outline all the different strategies you should be aware of when it comes to soccer.

    best ias coaching in india

    ReplyDelete
  16. I wanted to thank you for this great read!! I definitely enjoying every little bit of it I have you bookmarked to check out new stuff you post. ufabet1688

    ReplyDelete
  17. Fantastic post. I really Loved the your unique content. Thanks for sharing with us.

    Trading for beginners

    ReplyDelete
  18. I think this is among the most significant info for me.
    And i’m glad reading your article. But wanna remark on some general things, The web site
    style is great, the articles is really nice : D. Good job,
    cheers. 온라인카지노

    ReplyDelete
  19. I wanted to thank you for this great read!! I definitely enjoying every little bit of it I have you bookmarked to check out new stuff you post. 코인카지노

    ReplyDelete
  20. https://salsabeelahmedandco.com/
    Very Informative and useful... Keep it up the great work. I really appreciate your post.

    https://salsabeelahmedandco.com/company-registration-in-bangalore/
    https://salsabeelahmedandco.com/ca-firms-in-bangalore/
    https://salsabeelahmedandco.com/accounting-services-in-bangalore/
    https://salsabeelahmedandco.com/gst-consultants-in-bangalore/
    https://salsabeelahmedandco.com/public-limited-company/
    https://salsabeelahmedandco.com/private-limited-company-in-india/
    https://salsabeelahmedandco.com/one-person-company-in-india/
    https://salsabeelahmedandco.com/partnership-firm-in-bangalore/
    https://salsabeelahmedandco.com/limited-liability-partnership-llp/

    ReplyDelete
  21. Thanks For Sharing such a wonderful article the way you presented is really amazing It was extraordinarily simple to discover my way around and amazingly clear, this is staggering!!!
    Best Software Training Institutes

    ReplyDelete
  22. very great e-commerce website for custom packaging boxes try now Kraft Sandwich Boxes

    ReplyDelete
  23. Very interesting post. Thanks for posting. Researching on something and keeping up the data is very important in any business or educational industry. If someone is researching on ACCA and want to know the differences between ACCA vs CA. Visit this link.

    ReplyDelete
  24. This is extremely beneficial information!! Exceptional work. All this is important to learn to understand. Thank you for giving this helpful information. Keep publishing articles like this in the future.

    digital marketing course in hyderabad
    digital marketing training in hyderabad

    ReplyDelete
  25. But that’s not enough when we start talking about the importance of hiring residential security services in London. bodyguard company
    These have been summarised here in this blog.

    ReplyDelete
  26. This comment has been removed by the author.

    ReplyDelete

  27. This is amazingly gainful data!! Extraordinary work. This is critical to figure out how to comprehend. Much thanks to you for giving this accommodating data. Continue to distribute articles like this later on. Software development services company
    Hire iPhone developers

    ReplyDelete
  28. Our bespoke Leather Goods Manufacturers service can be either a full ex-factory production option for your own-label bag and accessory requirements or a cut-measure-trim option for customers who want to use their own materials.Leather Goods Manufacturers

    ReplyDelete
  29. If you have limited time away from management, a liquid mixture might be more practical. Remember that failure to heat the fake urine sample to a body temperature will fail a test. You must heat up the formula with an additional component, whether a heating pad, electronic heating device, or a hand-operated heating unit. Most of our reviewed products also included a temperature heating pad and/or thermometer testing part to make sure the sample is heated correctly before sending it to the lab. Still have questions about that (faux) pee smell? We have answers. Why do some people fail a test even after using synthetic pee? The most common reasons are that people don’t mix the urine properly, or that the specimen is not heated to a realistic 98.6 degrees F. However, the lab will also fail you if your sample contains an unidentified adulterant that could be interfering with the test data. Even an abnormal physical characteristic found in the specimen could be grounds to fail the user’s test. Zydot Ultra Clean shampoo is a great supplement to use to clean your hair even further. This should be used as a supplement with the Nexxus Aloe Rid or macujo aloe rid detox shampoo. The chemical composition of both shampoos complements each other well and can give you even more reassurance that the drugs are completely gone from your hair. Ultra Clean shampoo is a 3-in-1 deep cleaning product that helps to break down the outer layers of the hair shaft to expose the inner layers. It then works to remove chemical buildup, medications, and other impurities present in the hair. Zydot also includes a purifying conditioner that gets deep in your scalp to dissolve the toxins that are rooted in your hair follicle. Benefits of the Ultra Clean shampoo Although it’s an effective shampoo, it’s not strong enough on its own to totally get rid of drugs in the hair follicle.

    ReplyDelete
  30. Sharma Academy is Central Indias largest provider of Mppsc Notes and Mppsc Study Material. You will get updated MPPSC Notes as per the latest syllabus of state level psc exam in Hindi and English medium both.

    ReplyDelete
  31. Excellent goods from you, man. I have understood your stuff previous to and you are simply extremely fantastic. I actually like what you’ve obtained right here, really like what you are saying and the way in which by which you are saying it. You are making it enjoyable and you still care to stay sensible. I can’t wait to read much more from you. This is really a wonderful site. Electronics and Communication Engineering Scope

    ReplyDelete
  32. Great article this is really informative and innovative: with new updates. with new updates. It was really valuable. Thanks a lot. Travelers can easily apply online for e visa India. Thus the Government of India has provided an easy-to-use method to apply for visas through a simple online Indian visa application form.

    ReplyDelete
  33. Thanks for sharing this information, Keep it up.... South Africa e visa, The Government of South Africa has confirmed that South Africa's new e-Visa system will be implemented for 15 countries by March 2022.

    ReplyDelete

  34. Thanks for posting, it is really helpful. We are a leading Digital Marketing & Web Designing Company in Delhi. Visit us.
    Digital Marketing company in Delhi
    Web Designing company in Delhi

    ReplyDelete
  35. M88 Casino | All slots, video poker, bingo | Thakasino
    M88 Casino has over 100+ 1xbet online slots and poker games available to 12bet play for real money. The casino has a variety of slots, slots, m88 ทางเข้า table games, and live

    ReplyDelete
  36. I read your article several times since you make so many excellent points. For the most part, your viewpoints are similar to mine. This is excellent material for your readers. digital marketing assignment help


    ReplyDelete
  37. Colorful, aesthetically pleasing, and full of excellent reporting, Tamiloneindia has a monthly readership of more than 20 million. Based in New York, this news website delivers political, pop-culture, and world news. It is one of the best news websites and an excellent fit for those looking for something beyond a traditional news outlet. For a “fun” take on the news, Tamil One India may be the best news option for you.

    ReplyDelete
  38. Hello sir, Nice blog. Thanks for sharing. Do you know what are the required India visa documents? You can read Indian visa requirements via our Indian visa page.

    ReplyDelete
  39. Hey everyone, Foreign citizens can enter India for business purposes. The Indian government allows foreign country citizens to apply for a business e visa India. You can read more info about Indian business visa or an electronic business visa through our India visa website.

    ReplyDelete
  40. I am seeing the most popular content on your blog and I love to express them... If you want to plan a trip to Turkey, you will need a Turkey evisa. Turkish electronic visa or Turkey e visa is an official travel permit granting entry into Turkey, issued by the Turkish government to foreign travelers from around the world. Foreign citizens can apply for evisa Turkey online.

    ReplyDelete
  41. I'll definitely keep in minds all the tips..and will try to inculcate
    the most of them in my day to day life🎉🎉...they are really so appropriate

    Best Regards

    ReplyDelete
  42. EASYSIGHT serves you first-rate without squeezing your pocket but makes you excellent among st each certainly considered one among your associates.
    EASYSIGHT
    Blue Cut Lenses

    ReplyDelete
  43. Howdy decent post incredible data much thanks.click here

    ReplyDelete
  44. I love the way you explain your article. It's easy to read and understandable. I want to know articles like this. People have the option to apply for a Turkish Visa online which is a hassle free process. And its time and cost saving also.

    ReplyDelete
  45. Outstanding material. I think I’ll use it for developing my business continuity plan best chocolate in riyadh

    ReplyDelete

Post a Comment