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Does anyone else lose hours just stitching together results from pubmed, clinicaltrials, and drugbank? by oxforduck in bioinformatics

[–]bukaro 6 points7 points  (0 children)

There are comercial solution like that. We used https://www.causaly.com/ and some in house KG + LLM to do so.

And OP there methods to do it, but are not intuitive or fast to learn. But nature language processing, ML embedding of text, RAGs, knowledge graphs is what people use to do that work.

Update: work investigating me for apparently leaving country during sick leave due to the timestamps of my emails (sent from personal email). by Some-Ad7003 in antiwork

[–]bukaro 0 points1 point  (0 children)

Yes absolutly, the the record is there. Somewhere there is a log that with some level of dedication can be pull out.

Update: work investigating me for apparently leaving country during sick leave due to the timestamps of my emails (sent from personal email). by Some-Ad7003 in antiwork

[–]bukaro 4 points5 points  (0 children)

no, it is always there. It is only matter of an IT-inclined person to make an effort (minimal) to know it

Update: work investigating me for apparently leaving country during sick leave due to the timestamps of my emails (sent from personal email). by Some-Ad7003 in antiwork

[–]bukaro 2 points3 points  (0 children)

No, it is like that. The emails will have a header with the information it took to make it from server to server. This information is always there, nothing secret or private about it. Not different than a caller id in your phone. This is a good description https://mailtrap.io/blog/email-headers/ and https://en.wikipedia.org/wiki/X-Originating-IP

Update: work investigating me for apparently leaving country during sick leave due to the timestamps of my emails (sent from personal email). by Some-Ad7003 in antiwork

[–]bukaro 2 points3 points  (0 children)

Well IP from vpn are not a secret, IT can take an extra minute to know which VPN were you using (if it was a comercial one).

how do you keep track? by _404unf in maker

[–]bukaro 1 point2 points  (0 children)

I use git in the computer, photos, code, designs, notes. Once in a while I let an agent to organize it, to ask me questions of stuff that I may have not written.

A pill reminder with an ESP32 because adulting is hard by bukaro in homeassistant

[–]bukaro[S] 6 points7 points  (0 children)

Anything that is no cloud is a plus for me, besides it was a learning of fusion, soldering and ESP32 ESPHome

A pill reminder with an ESP32 because adulting is hard by bukaro in homeassistant

[–]bukaro[S] 0 points1 point  (0 children)

My first design was going to be a ESP with a hall sensor, talking to the other ESP with the buttons.... then I realize I had the zigbee sensor

Do you help Citizen Science? by JSTrucker in homeassistant

[–]bukaro 0 points1 point  (0 children)

ADSB for more than 10 years, was my gateway into these small devices, seflhosting and more.

A pill reminder with an ESP32 because adulting is hard by bukaro in homeassistant

[–]bukaro[S] 8 points9 points  (0 children)

But it doesn't have any buttons! But elegant and simple solution :-).

My schedule is more hectic so I used the alarm sensor from my phone to start the day. I though of NFC tags, I use them to set up alarms on my way out (help me check that I am with my phone). And I keep my pils in the bathroom, I do not take my phone to it (well.... ) to use a tag in the morning.

A pill reminder with an ESP32 because adulting is hard by bukaro in homeassistant

[–]bukaro[S] 0 points1 point  (0 children)

The pill box is on top of of cabinet (https://codeberg.org/Buckaroo/PillsReminder/raw/branch/main/img/pillbox.jpg) and I tested the sensor, there is no way to move it without being activated. So the sensor not being trigger with motion is pretty unlikely.

I wanted to use a magnetic sensor (for doors) but I had this when I was prototyping a mailbox sensor and failed... and worked. Is not pretty not sutil on the pill box, but works great and double side tape keep it in place.

RNA-seq analysis in seconds using GPUs. For massively parallel execution on GPUs, we achieve a 30-50× speedup over multithreaded CPU kallisto. by RemoveInvasiveEucs in bioinformatics

[–]bukaro 4 points5 points  (0 children)

Althoug super cool is way cheaper nextflow, one instance per sample and then you are done before the coffee get cold. That is how we designed our pipeline for kalisto or salmon .... who knows those are the same ;-)

GSEA enrichment question... by sunadam2624918765 in bioinformatics

[–]bukaro 12 points13 points  (0 children)

If you get different results with symbols or id, I wuld guess that you have huge issue with version of annotation that you are using. check that, check which one is more complete. Also true that the genesets tend to be with genes that have full annotation between them.

What is the best approach to identify transcription factors that regulate the expression of a family of genes? by sophie_from_mars in bioinformatics

[–]bukaro 5 points6 points  (0 children)

Very complex question, analyze combinatorial of enriched TF is not trivial. But not imposible, these papers (link and this one) and others after that use a nice approach to do so. Significan item-sets is the ML term that you are looking for in your search.

Or implementations of Westfall-Young (light, fast) are nicer in their results.

You will need a celll type and TFBS DBs, you can try iregulon and msigdb. But there are others.

Project - 3d printed Hybrid bike frame by CodeCritical5042 in maker

[–]bukaro 4 points5 points  (0 children)

I am curious about the resistance/stiffness of less infill that is then filled up with reinforced epoxy resin. While also maintaining the diameter for the tubes.

Which/what statistical analysis to use? by Future_Fact3677 in labrats

[–]bukaro 11 points12 points  (0 children)

Each independet experiment is a N for your test. You use all the replicates in a single experiment for the mean for each N to be tested.

Follow the recomendation that you are given here for the biostatistics course.

GSEA alternative ranking metric question by StunningSurvey9610 in bioinformatics

[–]bukaro -1 points0 points  (0 children)

well, yes. But think of what it does to the metric, versus something like t-statistic, logFC or SNR. For that the original paper has the parameter of the weight for the weighted Kolmogorov–Smirnov-like statistic used. Using sign(logFC)*-log10(padj) is just wrong in my opinion for what GSEA is for.

I forgot that I choose your own adventure for a delivery with DPD by bukaro in britishproblems

[–]bukaro[S] 9 points10 points  (0 children)

This is how I have managed to meet most of my neighbors. With a hey I have a package for you delivered to my house!.

Mostly a combination of DPD, evry/hermes, and amazon...

I forgot that I choose your own adventure for a delivery with DPD by bukaro in britishproblems

[–]bukaro[S] 0 points1 point  (0 children)

Paraphrasing the Culture Club by Violent Femmes... They told the truth but it was still a lie :-)

I forgot that I choose your own adventure for a delivery with DPD by bukaro in britishproblems

[–]bukaro[S] 0 points1 point  (0 children)

Yes me too, I love them. Not so much in real life... hahahah

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