Nicola Romanò @nicolaromano@qoto.org

‘I felt like a fraud’: A biologist goes public about a retraction https://retractionwatch.com/2023/12/15/i-felt-like-a-fraud-a-biologist-goes-public-about-a-retraction/

I love that open data and open code helped others identify the error -- so it could be corrected -- and also helped him demonstrate what he'd done which avoided questions of misconduct.

I was told by a neighbour this morning that I am "the right kind of immigrant".

When asked to explain he said that I work and pay taxes. He didn't also say that I'm ok because I'm white but I wonder how the conversation would have gone off I were not white.

Am I reassured that because i am "the right kind of immigrant" everything will now be fine in the Netherlands after a quarter of the people who live around me just voted for a fascist, when the new speaker in our parliament is a conspiracy theorist as well as a fascist, and when most of the rest of the country appears to think that this is just fine ? No it does not.

I have more in common with asylum seekers and any other immigrants than I do with fascists or with unthinking voters for fascists.
#pvvisfascism
#RefugeesAreWelcomeHere

**Just three days to go until Bioconductor leaves Twitter/X**

Bioconductor will no longer be posting on Twitter/X after the 17th December.

Instead we will be continuing to post on other social media platforms that better reflect our community’s code of conduct.

Have you followed us on our LinkedIn account yet?

Read more about our move in our blog post: https://buff.ly/3RddEAV

@MCDuncanLab Actually I have thoughts on this haha, gotta make my infographic but the sketch is:

This weekend I ordered a #Lenovo X1 carbon with #Fedora preinstalled. This still blows my mind.

It was very nearly a #Macbook pro. I'd love to experience that hardware. I'm an amateur photographer and it would be great to have another way to run #lightroom. (currently I edit on an #iPad which is actually probably better)

But the X1 won in the end. Thin and light, #Linux updates forever, all my tools of 20 years, access to drive and battery, way cheaper, consistent with my ideals.

Brave step! @sorbonne_univ_ unsubscribes from the Web of Science.

‘By resolutely abandoning the use of proprietary bibliometric products, it is opening the way for open, free and participative tools.’

https://www.sorbonne-universite.fr/en/news/sorbonne-university-unsubscribes-web-science

Batch effects correction with ComBat or ComBat-Seq... but in Python? Glad to see the pyComBat paper finally out https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-023-05578-5

#bioinformatics #batchEffects

W3C has posted that we are no longer active on X/Twitter and have directed all our followers here to Mastodon.

We are encouraging all W3C-related accounts to do the same.

Encourage your friends to follow us here!

A few weeks ago, I decided to make my first ever science comic about some of our research. I hope you love these lil blobs as much as I do! The comic continues in the comments :) #developers #DeveloperThriving #SoftwareEngineering @seresearchers

This is a nice tutorial if you are interested in how and why overfitting (etc) happens, how/why regularization helps to alleviate overfitting, ...

"The Theory Behind Overfitting, Cross Validation, Regularization, Bagging, and Boosting: Tutorial", Benyamin Ghojogh, Mark Crowley

#machinelearning #overfitting

https://arxiv.org/abs/1905.12787

#bioawk is a command-line gem; it’s an extension of awk that auto-assigns variables for BED, SAM, VCF, GFF, and FASTX[AQ] format files, speeding up routine tasks.

For FASTX:
$1:name
$2:seq
$3:qual (FASTQ only)
$4:comment

Found in @vsbuffalo’s great #Bioinformatics Data Skills.

I am actively recruiting students for my lab at UMass Dartmouth!

Are you interested in a project on actin, amoebae, cell migration, and/or pathogenesis? Send me an email & apply to the Integrative Biology PhD program by Jan 15!

Please RT
More info: https://katrinavelle.wixsite.com/science

What does a #scientist look like? Children are drawing women more than ever before.

https://www.science.org/content/article/what-does-scientist-look-children-are-drawing-women-more-ever

@nicolaromano @tomstafford
I'd agree. But that's why I voted C. It's past the time where these self serving bad practices can be called "inadvertent".

Researchers! Please complete my poll with uneven response options (and boost for reach)

How much of a problem is deliberate research fraud?

meetings today? zero should be the goal https://blog.codinghorror.com/meetings-where-work-goes-to-die/