York TF Data Science Hub

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

[Chemistry at York @ChemistryatYork]

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)
https://t.co/XQzJDzzuCb

[Peter O'Toole @YorkBioimaging]

And we're off. #ctls2023 3 days in #dublin @CrokePark focused on core facilities. Meeting familiar and new faces already. Awesome start.

[York TF Data Science Hub @YorkBioinfo]

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

[Charlotte Head @charlierosehead]

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]

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. https://t.co/eh0l1TIRPY

[York TF Data Science Hub @YorkBioinfo]

"To craft Tabix index, with HTSlib's might, Employ "tabix" command-line, aright.
... etc.

Full response here: https://t.co/D7P3m1LnqR

[York TF Data Science Hub @YorkBioinfo]

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

[York TF Data Science Hub @YorkBioinfo]

"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."

[York TF Data Science Hub @YorkBioinfo]

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.

https://t.co/hE1nEjiDn8

[York TF Data Science Hub @YorkBioinfo]

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]

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...

[York TF Data Science Hub @YorkBioinfo]

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

[York TF Data Science Hub @YorkBioinfo]

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

[York TF Data Science Hub @YorkBioinfo]

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

[York TF Data Science Hub @YorkBioinfo]

@OracleResearch @insanity_one @Oracle @OracleCloud Amazing! Congratulations, James! \o/

[York TF Data Science Hub @YorkBioinfo]

Ah, the old PAELLA protein... 🤨

[Andrea Watson @awatsontxt]

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)
https://t.co/fPa4tq9ZGi

[York TF Data Science Hub @YorkBioinfo]

@awatsontxt Terrific figure! The stacked area plots work very well.

[York TF Data Science Hub @YorkBioinfo]

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

https://t.co/ngfdqHgL3X

[Geertje van Keulen @DrGvanK]

Excellent curry with @GavinHThomas @marjanvandewoude @Chris_mulligan et al at Itihaas @Itihaasindian can def recommend #microbio23!