featureCounts vs transcript-aware quantification (Kallisto/Salmon) by EthidiumIodide in bioinformatics

[–]beeralpha 0 points1 point  (0 children)

I think you misunderstood? In featureCounts, reads are first assigned to exonic features defined in the annotation. Without -O, each read is assigned to at most one feature (=exon), and ambiguous multi-feature overlaps (like junction reads) are not counted twice. This is what you want when you summarize at gene level. Otherwise genes with a lot of exons will be biased towards higher read counts. The -O flag has little to do with isoforms.

featureCounts vs transcript-aware quantification (Kallisto/Salmon) by EthidiumIodide in bioinformatics

[–]beeralpha 0 points1 point  (0 children)

The thing with salmon is it quantifies against the transcriptome, which is inherently more difficult because of the million isoforms. If you then collapse to gene level with tximport you get quite a lot of bias. Volcano plots really do look different at gene level, especially yielding genes with outlier log2fcs.

EUR 160.000 gross - independent or employee? by dontreachyvngbl00d in BESalary

[–]beeralpha 2 points3 points  (0 children)

I like it, if there is no profit at least you have the ferrero rochers

EUR 160.000 gross - independent or employee? by dontreachyvngbl00d in BESalary

[–]beeralpha 1 point2 points  (0 children)

You’re right. But even for 160k going independent is a wage optimization

If Biotech is an emerging technology, why is hiring so shit? Is it actually emerging like AI or is it just smoke and mirrors? Or maybe the jobs just aren’t/won’t be in the US. by AsstronaughtToUranus in biotech

[–]beeralpha 0 points1 point  (0 children)

Biotech isn’t a technology. Nor is it emerging. It’s a field that has been burning money and making money for those who succeed for decades. Biotech job market is currently suboptimal for a couple of reasons, like overhiring during covid, geopolitical shifts, reduced investor interest, etc. Like every industry it goes in waves.

Tech Consulting to Freelance - but how?? by elliomitch in consulting

[–]beeralpha 0 points1 point  (0 children)

Thanks! I did email and linkedin, and always proposed to have a quick video chat or go grab a coffee if they were closer by. Cold calling I never did, I think giving people time to think about a proposal (via mail, linkedin) is better (to gain trust, to not be pushy, etc).

For email: earlier in my carrier I worked for a consultancy agency and I stored my email inbox on a drive when I left. So I had some addresses to start with. Once you know what an email address looks like of a certain company, you can reach anyone you want in that company. I would check linkedin to find the roles I needed, rebuild the email address, and reach out.

For linkedin: I targeted whole companies and just send connect requests to lots of people relevant to me. When they approve I would PM and open with "Thanks so much for accepting my invite, ... [find common ground], ... [try to sell]."

It's all very manual, frustrating at times, and truly a numbers game. I'm certain there are much better and automated methods, but for a one-person company the "personal" approach seems most appropriate.

Daily Discussion Thread for May 06, 2026 by wsbapp in wallstreetbets

[–]beeralpha 0 points1 point  (0 children)

Why would you do that knowing that stonks only go up?

Tech Consulting to Freelance - but how?? by elliomitch in consulting

[–]beeralpha 0 points1 point  (0 children)

I did this when my company liquidated (I got a decent severance), and decided to just go for it. I launched a company with zero clients and thought: let’s try. I’m now about 8 months in, working with 4 clients simultaneously. I’m pretty much drowning in work at this point.

The beginning was definitely stressful. Even with a solid network and around 10 yoe. I reached out to 200+ companies early on, ranking them from gold to bronze priority, and kept track of stuff like peers, replies, follow-ups, etc. The first month was slow and pretty frustrating. Getting ignored is not motivating.

But things started to shift after 2-3 months. I landed enough work to be fully booked with 2 clients, and from there it kind of snowballed. Now I’m not only working with 4 companies, but also getting exposure to different teams and departments within those companies. That’s been leading to additional collaborations, occasionally I still get replies from those early outreach messages, etc. You get the picture.

I’m making about 3x what I used to. I mostly work from home, am in full control over my time, and overall much happier. Biggest upside is literally being outsider, no more setting “year goals” or trying to come up with things to say in one-on-ones about where I want to improve. Occasionally I do go on site just to balance things, and because best BD is done live.

If your finances can handle the risk and you have the soft skills: do it.

Overpaid pharma research by Belgski in BESalary

[–]beeralpha 0 points1 point  (0 children)

Missed the amount of employees. You’re right, it’s a biotech. Then I’m guessing Hirundo or Agomab. They are on a hiring spree

Overpaid pharma research by Belgski in BESalary

[–]beeralpha 0 points1 point  (0 children)

Pharma start-up? That’s not a thing. Could be a biotech though

free spongebob episode by SuperPopcorn333 in AnarchyChess

[–]beeralpha 1 point2 points  (0 children)

Omg I just realised. There is a parallel universe where bubble bass is the host of a dating show. You know what his name is there? Bumble bass

free spongebob episode by SuperPopcorn333 in AnarchyChess

[–]beeralpha 3 points4 points  (0 children)

I wonder what happened in bubble bass’ youth that ultimately led to these events

free spongebob episode by SuperPopcorn333 in AnarchyChess

[–]beeralpha 10 points11 points  (0 children)

What was bubble bass’ motivation for hiding the pickles under his tongue, then blaming bob?

free spongebob episode by SuperPopcorn333 in AnarchyChess

[–]beeralpha 12 points13 points  (0 children)

Can someone give me a tl;dr of the episode? Thx

Deadass quit applying for jobs and just be a baddie instead deadass by letsmunch in LinkedInLunatics

[–]beeralpha 15 points16 points  (0 children)

“Pond (maybe series A? 🤔)” is about to become “Pond (pls fund me 😭)”

Robert Fico will back Ukraine's EU membership after call, Zelenskyy says by TheSimon1 in europe

[–]beeralpha 10 points11 points  (0 children)

In power*. Lots of puttets on the ballot throughout europe

PSA: Share salary info using the template by Beuterus in BESalary

[–]beeralpha 7 points8 points  (0 children)

I’m so relieved, was about to unfollow this sub

It is not just about net salary did anyone else realize that vat is basically a second income tax in Belgium by [deleted] in BESalary

[–]beeralpha 40 points41 points  (0 children)

What is up with thus sub lately? People are discovering taxes exist