Why is Plasmidsaurus sequencing so cheap? YouTube video by OMGenomics

Podcast episode: www.youtube.com/watch?v=Ss8H...

The "Why Not?" Era of Sequencing Has Begun YouTube video by OMGenomics

Lab tour and takeaways: www.youtube.com/watch?v=nS2o...

We visited Plasmidsaurus and had tons of interesting takeaways, so we went back to record a whole podcast episode with them and film a lab tour for our YouTube channel. Here are both:

Just published an interactive article about a magical algorithm known as the Burrows-Wheeler Transform, which powers sequence alignment tools like bowtie and bwa: sandbox.bio/concepts/bwt

It's also notoriously unintuitive so I'm hoping this article helps you build that intuition.

AI in biology: distinguishing hype from reality YouTube video by OMGenomics

There's now a race to apply AI to every imaginable field of biology. The problem is: unless you understand the biology really well, it's easy to think you've solved the problem when you haven't even come close.

youtu.be/o097zC7CM5I

We always tell people to create a portfolio to showcase their work, so today we're releasing a template to get you started: github.com/omgenomics/p...

It's made for scientists & engineers who want a living resume that showcases projects, work timeline, and blog posts that demonstrate your expertise

We sent out a calendar invite to everyone who signed up, so check your spam filters!

You might be networking wrong YouTube video by OMGenomics

We just released a new video on how to get more out of those “let’s chat” conversations when job hunting, based partly on my past experiences being on the receiving end of requests for advice and job referrals:

youtu.be/bpQaIvqqkKw

🧬🖥️ We are hosting free bioinformatics office hours on Feb 19th at 10am-noon PST. Bring your bioinformatics career or technical questions, and @robert.bio and I will try to answer them.
Sign up here: tally.so/r/mOb6dM
Please share especially with students and early career scientists!

Friends are looking for jobs. Collaborators are dropping off papers. Funds are being pulled away. But let’s just pretend everything is normal.

RNA-seq tutorial with DESeq2: Differential gene expression project YouTube video by OMGenomics

🎁 New RNA-Seq tutorial! Learn to run differential expression analysis with DESeq2, and create your own bioinformatics projects using public data and the Expression Atlas 🧬 🖥️

youtu.be/NGbZmlGLG5w

Before

After

Code (after adjustment)

I almost missed the part where it's not just text size but also the pixel circumference of the track that determines how much space the text needs. This is before and after adding a fix to take circumference into account.

And here's that spirograph case again now that I added some guardrails, namely restricting max total space <= 2π. There is a beauty to radial geometry that gets me every time 😍

I got the heuristics just right so the pins slide over just enough as text gets bigger.

Ooh fun, it's making an interesting pattern when there are too many data points. I think it's because the little pins wrap around so far that they connect to the other side of the circle. It's pretty. Reminds me of the spirograph toy from when I was a kid.

Thanks to the Circa user who requested this for giving me a good excuse to code today :)

I'm working on a little feature for Circa. It's been over a month since I really coded with all the other startup things like marketing and "strategic thinking" taking up my brain space, so it's really nice just to sit down and code a little algorithm and some SVG paths for overlap-avoiding text.

Sequence Analysis - 42basepairs Bioinformatics sequence analysis on FASTA and FASTQ files, including reverse complement, GC content calculations, codon usage analysis, and converting your files to FASTA, FASTQ, or SAM format

I made a little swiss army knife tool for quickly inspecting FASTA/FASTQ sequences, including GC content, codon analysis, reverse complement, and file format conversions: 🖥️ 🧬

42basepairs.com/tools/sequen...

We reviewed 10 of our subscribers' CVs! YouTube video by OMGenomics

🧬 🖥️ This was a fun one to make: We reviewed 10 CVs sent in by our audience, and here are the 7 common mistakes we kept seeing: youtu.be/qXPJpnrfX_4

Data and Text Processing Command-line tutorials on data and text processing, by Francisco M. Couto.

We just released 8 new data wrangling tutorials for biologists! sandbox.bio/community/da... 💻 🧬

How to make this circos plot in 1 minute YouTube video by OMGenomics

Check out this 1-minute mini-tutorial for Circa 2.0
youtu.be/e_zjPY2vpaM

From a paper about the Genbank database: "the database is available to any user in several forms: it is distributed on magnetic tape, on floppy diskettes and on-line" :)

If you think bioinformatics is hard today, you should have seen it in 1985 😬 🧬 🖥️

How to investigate structural variants YouTube video by OMGenomics

Investigating structural variants? I just released a tutorial video showing how I do this quickly and intuitively using my tools Ribbon and SplitThreader:
youtu.be/TP-H9epbsTM
#bioinformatics

3 ways I made money on the side with bioinformatics YouTube video by OMGenomics

Here are 3 ways I made money on the side with bioinformatics during my PhD:
www.youtube.com/watch?v=Q64t...

The backstory behind the FASTA bioinformatics format

🧬🖥️

youtu.be/7LA0IKsVloU?... via @YouTube

Wait, why aren’t folks using their own domains. Am I missing something?

Now I am! Thanks for the push :)

Huh yes! With fractional teaspoon and tablespoon measures marked all on the same pipette…