York TF Data Science Hub (@YorkBioinfo) header
York TF Data Science Hub (@YorkBioinfo) profile picture

York TF Data Science Hub

@YorkBioinfo

York TF Data Science Hub, Biology Dept, University of York. Data analysis, visualisation, training, in biology and beyond. #bioinformatics #datascience #python

 York, UK
york.ac.uk/biology/technology-facility/data-science/
Joined May 2015
  • Tweets174
  • Following252
  • Followers399
York TF Data Science Hub retweeted
Chemistry at York (@ChemistryatYork) profile picture
Chemistry at York@ChemistryatYork27 Jul 2023
Our MSc Data Science applies data science techniques to a whole range of scientific problems - working with @HullYorkMed @YorkEnvironment @BiologyatYork and @PhysicsatYork. Apply by 31 July (international applicants) or 8 September (UK applicants) york.ac.uk/study/postgraduat…
6
2
13
3,131
York TF Data Science Hub retweeted
Peter O'Toole (@YorkBioimaging) profile picture
Peter O'Toole
@YorkBioimaging27 Jun 2023
And we're off. #ctls2023 3 days in #dublin @CrokePark focused on core facilities. Meeting familiar and new faces already. Awesome start.
Image from Peter O'Toole (@YorkBioimaging)
2
5
1
41
2,401
Last call for our Intermediate Python course next Thurs/Fri, here in York. Learn all about how to handle, analyse, and visualise large data with Python. Email [email protected] to sign up. Please RT! #python #datascience @BiologyatYork @YorkBioimaging
Image from York TF Data Science Hub (@YorkBioinfo)
1
2
283
York TF Data Science Hub retweeted
Charlotte Head (@charlierosehead) profile picture
Charlotte Head@charlierosehead21 Jun 2023
Selection Box 2 brings us interesting talks from Brennen Fagan from @UoY_Maths, @sandyjmacdonald from @tf_datascience in @BiologyatYork and Tom Collins from @Music_at_York! We'll be in B/M/023 on Campus West!
Charlotte Head (@charlierosehead) profile pictureCharlotte Head@charlierosehead21 Jun 2023
Today's FREE events with Data Discoveries at @UniOfYork , we have an Wikidata event run by @UoYLibrary starting at 10am, and our 2nd Selection Box, at 1230 in B/M/023. Find out more at: charlierose22.github.io/data…
Data Discoveries 2023

Data Discoveries 2023

Event website for Data Discoveries 2023 at the University of York.

charlierose22.github.io
2
1
930
York TF Data Science Hub retweeted
Charlotte Head (@charlierosehead) profile picture
Charlotte Head@charlierosehead13 Jun 2023
Are you interested in learning more about how data can be used? Do you want to network with other staff and students? Then you don't want to miss Data Discoveries, a two-week showcase starting next week exploring the breadth of data science at York. linktr.ee/datadiscoveries202…
A poster for the Data Discoveries event at the University of York. White text on a navy background. Text says: Data Discoveries, the future is data driven. Data science is one of the most in-demand skills in the world today and you will likely use it more than you think. Data Discoveries is a two week interdisciplinary showcase that will explore how data is used in both research and industry. With events and talks spanning a wide range of subjects, you'll have the chance to network, appreciate the breadth of data science at York and pick up an idea or two for your own data challenges.

ALT A poster for the Data Discoveries event at the University of York. White text on a navy background. Text says: Data Discoveries, the future is data driven. Data science is one of the most in-demand skills in the world today and you will likely use it more than you think. Data Discoveries is a two week interdisciplinary showcase that will explore how data is used in both research and industry. With events and talks spanning a wide range of subjects, you'll have the chance to network, appreciate the breadth of data science at York and pick up an idea or two for your own data challenges.

9
5
9
3,911
"To craft Tabix index, with HTSlib's might, Employ "tabix" command-line, aright. ... etc. Full response here: pastebin.com/0WCHr0GM

What is the best way to index a vcf file? in the style of Chaucer - Pastebin.com

Pastebin.com is the number one paste tool since 2002. Pastebin is a website where you can store text online for a set period of time.

pastebin.com
66
"First, Tabix, a tool oft sung, 'tis true, An index file (.tbi) it doth imbue. With swiftness, variants it doth retrieve, By genomic coordinates, it doth achieve. Through binning scheme, vast files it doth face, Thus suited for grand VCF's ample space."
1
75
"Of indexing VCF, a noble feat I tell, To enhance the query, access it well. In verity, three methods of renown, I shall present, as erstwhile made known."
1
32
Chat-GPT is remarkable in many ways. We asked it "What is the best way to index a vcf file?" and it gave us a very useful answer. And then we asked it to rewrite the answer in the style of Chaucer... #chatgpt #bioinformatics
1
488
Tangential tweet, but this web app that lets you mix-up different emoji is incredible. A sceptical microbe emoji always seemed like a missed opportunity... until now. In all seriousness, could be very handy for talks or teaching materials. emojikitchen.dev/
Image from York TF Data Science Hub (@YorkBioinfo)
2
148
Super thread by Ewan, as always. Be very aware of the limitations of any method you use but, at the same time, don't dismiss the method *because* of those limitations.
Ewan Birney (@ewanbirney) profile pictureEwan Birney@ewanbirney4 Jun 2023
Idly reading another single cell paper (it is ... impressive how the technology) and authors using phrases like "neighbourhood" and "close to" clearly refering the reader to the UMAP display...
1
104
We also have 3 more courses coming up later this year: a new Advanced Python for Machine Learning course, our popular Intro. to Python course, and the new Intro. to Scientific Computing course. #python #datanalysis @BiologyatYork @YorkBioscience @YorkBioimaging @YorkGenomics
Advanced Python for Machine Learning course advert, run by the University of York Bioscience Technology Facility. 2 days (exact dates to be confirmed) in September 2023. Learn deep learning theory, TensorFlow and Keras, neural networks, and the ethics of AI and machine learning. Email btf-enquiries.york.ac.uk for more details.

ALT Advanced Python for Machine Learning course advert, run by the University of York Bioscience Technology Facility. 2 days (exact dates to be confirmed) in September 2023. Learn deep learning theory, TensorFlow and Keras, neural networks, and the ethics of AI and machine learning. Email btf-enquiries.york.ac.uk for more details.

Introduction to Python course advert, run by the University of York Bioscience Technology Facility. 2 days (exact dates to be confirmed) in Autumn 2023. Learn core programming concepts, Python data types, how to read and write files, and plotting and data visualisation. Email btf-enquiries.york.ac.uk for more details.

ALT Introduction to Python course advert, run by the University of York Bioscience Technology Facility. 2 days (exact dates to be confirmed) in Autumn 2023. Learn core programming concepts, Python data types, how to read and write files, and plotting and data visualisation. Email btf-enquiries.york.ac.uk for more details.

Introduction to Scientific Computing course advert, run by the University of York Bioscience Technology Facility. 2 days (exact dates to be confirmed) in Autumn 2023. Learn command line programming, essential terminal commands, how to remotely access other machines, and how to read, write, and parse files. Email btf-enquiries.york.ac.uk for more details.

ALT Introduction to Scientific Computing course advert, run by the University of York Bioscience Technology Facility. 2 days (exact dates to be confirmed) in Autumn 2023. Learn command line programming, essential terminal commands, how to remotely access other machines, and how to read, write, and parse files. Email btf-enquiries.york.ac.uk for more details.

2
3
491
Join us on 6/7 July to learn how you can use Python to carry out complex analyses of your data. DM or email us for more info. #python #dataanalysis @BiologyatYork @YorkBioscience @YorkBioimaging @YorkGenomics
Intermediate Python Programming course advert. Learn complex data analysis with Python. 6th and 7th July 2023. University of York Bioscience Technology Facility Data Science Hub. Email btf-enquiries@york.ac.uk for more details.

ALT Intermediate Python Programming course advert. Learn complex data analysis with Python. 6th and 7th July 2023. University of York Bioscience Technology Facility Data Science Hub. Email [email protected] for more details.

2
5
6
894
We're running several courses through the year covering a range of data science topics. Open to everyone, York-based or elsewhere. *Pass it on*, or contact "[email protected]" for more info. #dataanalysis #datascience #bioinformatics
Brush up your data analysis! We're running these courses here at the University of York: Intermediate Python: 6-7 July (cost: £400) Machine Learning in Python: date TBC in September, 2 days (cost: £400) Intro. to Scientific Computing: date TBC in Autumn, 1 day (cost: £150) Intro. to Python: date TBC in Autumn, 2 days (cost: £400) Contact btf-enquiries@york.ac.uk for more information.

ALT Brush up your data analysis! We're running these courses here at the University of York: Intermediate Python: 6-7 July (cost: £400) Machine Learning in Python: date TBC in September, 2 days (cost: £400) Intro. to Scientific Computing: date TBC in Autumn, 1 day (cost: £150) Intro. to Python: date TBC in Autumn, 2 days (cost: £400) Contact [email protected] for more information.

5
5
313
Ah, the old PAELLA protein... 🤨
Image from York TF Data Science Hub (@YorkBioinfo)
107
York TF Data Science Hub retweeted
Andrea Watson (@awatsontxt) profile picture
Andrea Watson@awatsontxt18 Apr 2023
Delighted to announce the publication of this work from my PhD! We show that metabolically independent microbes associated with human gut “dysbiosis” may not in fact be causal of disease, but instead selected for under stressful conditions. (1/4) doi.org/10.1186/s13059-023-0…
Image from Andrea Watson (@awatsontxt)
19
148
25
648
281,793
Some rough-around-the-edges Python code that we wrote to draw out the exon structures of transcripts. We were using it to show transcripts assembled by Stringtie2. Contributions welcome! #bioinformatics #datascience github.com/sandyjmacdonald/d…
Image from York TF Data Science Hub (@YorkBioinfo)
41
York TF Data Science Hub retweeted
Geertje van Keulen (@DrGvanK) profile picture
Geertje van Keulen@DrGvanK18 Apr 2023
Excellent curry with @GavinHThomas @marjanvandewoude @Chris_mulligan et al at Itihaas @Itihaasindian can def recommend #microbio23!
Image from Geertje van Keulen (@DrGvanK)
2
17
1,324

No more items