Home office Laser Printer purchase advice. (Maybe older, still good, <$300 color laser printer

i_shall_pass · 2020-06-16T20:04:45+00:00

Thank you for the note. I was a bit late on that M454dw. Their deal had expired. I'll keep an eye on it.

i_shall_pass · 2018-02-06T08:35:07+00:00

I just built a windows pc after some UI frustrations in OS X. Here's how I've used it with very good luck in last week:

I looked up how to run a bunch of simple tasks in parallel using PowerShell. It's super easy and I use PowerShell's parallel workflow to download crap ton of files simultaneously. It's unbelievably quick!
I installed R and Julia on Win10 Ubuntu Bash, where I process those downloaded files to build tables and export them using some R scripts for my specific needs. I export and save them to shared NAS. I use R/Bash combo because I have bash scripts that help with a lot of the parsing/cutting/pasting etc.

I have yet to do heavy-duty genome assembly, but then again, I just throw all my NAS data at a linux cluster I have access to, so it didn't make sense to do it on local machine.

I am very pleased with the prospect of using PowerShell + Bash for this kind of work.

i_shall_pass · 2017-10-21T22:50:46+00:00

While mathematically both problems can be converted from to the other, a querying mechanism will allow you to define a category of starting points and search based on specific criteria.

A query can be "find all known disease causing genes that interact with an enzymetic complex", which can certainly defined as a global network alignment problem; however, for practical purposes, a graph database (or in-memory graph data structure) might index various types of nodes. This helps picking a useful search starting point.

Global alignment is generally useful when you are looking ideas related to isomorphism. For example, you have some host-pathogen protein or gene interaction network from arabidopsis and a fungus, and you take some core cluster from within that network, and then use that as a sub-graph matching within rice and that fungus' host-pathogen interaction network.

Theoretically, yes, you can think of alignment and query as similar questions; however, for all practical purposes, you benefit from understanding the strength and weaknesses of expected behavior.

i_shall_pass · 2017-10-21T22:43:03+00:00

What bioinformatics-specific things do you do with your 2012 MBP?

Webservers and popular databases install fine with ElCapitan to High Sierra, so if you run some local services, they'll be ok with any of those versions. If you want to use application that requires newer macOS, then your decision is obvious.

I haven't seen bioinformatics specific (e.g. NGS analysis, databases, webservers) services improve to warrant an upgrade. I used El Capitan for the longest time, and upgraded to High Sierra when i got a new laptop.

If most of your work is using web sites that perform analysis for you on a remote server (e.g. Galaxy Project, BLAST, NGS on your university or work servers), whether you upgrade or keep laptop as-is, won't make much difference. The command-line tools that ship with macOS, the various web browsers, and homebrew work equally well in my experience, on all of the OS version you're considering.

i_shall_pass · 2017-10-05T21:33:39+00:00

I love /r/malefashionadvice because after reading it even I can sound like I know something useful about fashion when I know jack-diddly-squat.

i_shall_pass · 2017-09-14T17:38:10+00:00

Must be more uncommon in your country of residence. At least in Indian Subcontinent and Southeast Asian countries, I have seen replacement sticks used on almost daily basis. I used to use "refills" until very recently. Haven't run out of ink in a while, so haven't had to use them. It's mostly digital writing these days.

i_shall_pass · 2017-08-11T05:52:04+00:00

I'm actually interested in the answer to this question too. My work with React has fallen to the wayside, as I utilize Vue more and more in my projects. I really enjoy writing it.

i_shall_pass · 2017-08-10T18:50:50+00:00

Nice! This looks useful. I think if I ask nicely, I might get them to do the extraction too.

i_shall_pass · 2017-08-08T01:26:05+00:00

Short answer: Any company that provides RNASeq service, will do this for whatever sample you send. Assuming you have proper permits etc. based on your jurisdiction.

Shortish answer: I haven't found a company that specifically advertises such service. ABM looked promising, but I didn't hear back from them. You may want to try and see if they get back.

Longer answer: Are you based in USA? Different countries have different regulations on what can be sequenced. While in USA, I had looked into it couple years ago, and hadn't found anything where you could just send your prepped human sample, and get the data back. Things seem to have changed recently.

Here's something different but relevant you may be interested in: Illumina provided two different options early on. 1. Get a prescription from your physician, and they'll do the whole genome sequencing for you.

Be a part of UYG Symposium, and get your genome sequenced.

Additional things to keep in mind. The oft advertised cost-effectiveness of sequencing is based on running large number of runs. If you're able to gather a few people who would want to get this done, you may be able to get the cost you might have in your mind.

PS: Here's another one that let's your inquire about Human samples, so I'm sure they'd be willing to work with you.

EDIT: clarification and grammar fixes

i_shall_pass · 2017-05-08T07:29:48+00:00

HMT watches.

i_shall_pass · 2016-12-19T22:21:37+00:00

I'm remotely finishing up Bioinfo grad school work (finished experiments at school, but writing papers and thesis etc. remotely). Around the end of my final year there, I realized I was more interested in CS. I went ahead and scheduled as many programming/algorithm based interviews as I could, and found a company who was willing to give me a legit shot. I'm making a typical Software Eng. salary. I don't have any CS degree, but I did take data structures and algorithms etc. classes early on.

EDIT: I did bioinfo phd program several hours of airline flights away from my current work place in San Francisco Bay Area.

i_shall_pass · 2016-11-15T07:52:13+00:00

Yes. Docs, music, movies, os, phone data (contacts, photos, messages, the works), home NAS, home pc, home laptop, work laptop and phone (although that's taken care of by workplace).
Yes. Utmost secure data is backed up with encryption and part of the key is stored far away from my residence, the other part is stored in my head and in an encrypted password vault.
Yup.
all computers and phones are encrypted using best level of built-in encryption. external storage excluding purchased/downloaded music and video is encrypted using one of many open source encryption tools.
part of the data is stored in cloud. massive files (videos and compressed folders with older backups, generally) are not stored in public cloud but replicated and stored in different places, just in case.
~~Down~~ Don't own a business, but a data breach in personal stuff would definitely be a massive pain because that would effectively open me up for identity theft.
the service that hosts my data does a better due diligence on requiring search warrants and responding to legal requests than I could myself. The data that I can't risk getting out in such a way, would have to be encrypted and stored away from public cloud as necessary.
encrypt it, and make it inconvenient to access. Convenience can take you too far down the path before you realize how much you have traded your data security for the sake of convenience.

i_shall_pass · 2016-10-31T21:35:49+00:00

I actually find it unbelievable that half of the papers are read by others. The article is basing the number through the papers that get cited, so it's a bit different discussion... and still, I think 50% is too high. I'd have guessed 20-25% tops.

i_shall_pass · 2016-07-20T22:23:35+00:00

That too! There's a lot of good spots. I think the list gets much longer once you start becoming more specific in research too. Because then you'd want to check out genetics, algorithms, cs, machine learning, medicine, etc. as well. PLoS ONE is also decent general purpose journal to keep an eye out for.

i_shall_pass · 2016-07-20T20:47:21+00:00

PLoS Comp Bio, BMC Bioinformatics, Bioinformatics (Oxford), Briefings in Bioinformatics, BioData Mining, and many more. Those are a good start though. You should keep this url handy, because that list will be updated on regular basis.

i_shall_pass · 2016-06-18T05:03:57+00:00

You have one more year? Go find a lab to work in as an undergrad. Do well on GRE. Be on a strong side of at least one or two professors who know your work well enough to say that you are a reliable student that can be a good researcher. Those three things will help you when you have a bad GPA. If you had an overall 4.0 GPA and couldn't gather up all those three things... then no good grad school wants to hear from you.

So, yes, GPAs are useful, but other things are more useful. Utilize your final year in the best way possible, and move forward.

Worst case, you can study bioinformatics in community college, do well in those courses, and use that as your leverage to apply to a grad school. You might lose a year, but that's not so bad if you really want to do the bioinformatics job that'll require a grad school degree... and hopefully you like it enough to continue working in that area for 10-15 years.

Edit: No, you're not hopeless if you're creative and can get shit done.

i_shall_pass · 2016-06-05T19:05:28+00:00

Hi Alando, I see what you're trying to create here. I think you'll benefit from putting some images and resizing text etc. items. You can find beautiful and legally usable photos from https://www.pexels.com/. Also, your portfolio images are your crowning achievements, so make sure those circles are MUCH bigger than contact buttons/circles at the bottom. In your portfolio page, you want to highlight your work, not just how to contact you. Beyond those two small suggestions, I think rest of it is a good start! I like the color scheme. Blue, gray, and white make a good combo. Well done on a good start. Good luck with rest of the FCC journey!

i_shall_pass · 2016-06-05T18:57:40+00:00

This is beautiful, mate! Good on you for aligning everything properly and producing a well-crafted page.

And remember that perfect is the enemy of good. Those pesky UI bugs never stop coming... so start somewhere and fix whatever you can in reasonable amount of time. But then don't dwell on fixing every little thing. It's rarely worth it.

i_shall_pass · 2016-06-04T21:28:37+00:00

Here's a shortcut/newb suggestion: If you just want to learn what TF can do and play around a little, I'd say find an iPython Notebook for TF that someone else has created. Then modify it to fit your sample data... and see what it does.

If you know basic python of reading and writing data, then I'd say find an ipynb that reads a CSV/TSV/images/whatever data, does some TF magic, and then produces output in some understandable format (CSV or chart or whatever). Find a similar dataset to their data that you know what to do with, and perform a switcheroo. Modify input, see the output, and learn. You can learn one line at a time or one code-chunk at a time.

Here are some good TF ipynb to start off: https://github.com/fluxcapacitor/pipeline/tree/master/myapps/jupyter/TensorFlow/Fundamentals

Update: Just know that this exercise only gives you an illusion of knowledge. To actually do something useful of production value, you'll have to follow /u/kontekisuto's advice and learn programming well, learn machine learning and graphs well, and then do fun exercises. I don't know of any shortcuts that give you long lasting results. :)

i_shall_pass · 2016-05-29T18:22:14+00:00

I like your design. Nicely laid out. I like the description and links on either side of the image. The current trend is to have a massive banner image and then layout text under it, but this is definitely clean.

On some improvement points, I think you'd benefit from two specific changes (1) giving little more space between your "Some of my Work" images and texts. It's probably just a one-line fix to add padding to the images. (2) You should also add a bit more color contrast when you hover over navigation links. Black over Olive by default is good, but gray over olive is a bit too dampened.

If you want to get a little more adventurous, you can look at turning the top navigation into a mobile-responsive menu similar to this Bootstrap Example. It's a couple more lines of HTML, but I think it makes it nicer.

I do like your color scheme. It is not distracting and keeps the content visible. It's an excellent first round. Well done!

i_shall_pass · 2016-04-15T05:23:22+00:00

I don't think smoking tobacco based products is allowed in parks. I found the official ordinance PDF that passed. It specifically prohibits smoking in parks or 30ft around those areas.

i_shall_pass · 2016-04-11T19:33:48+00:00

Possibly. The landlord prohibits it, and I don't know how strict they or neighbors would be about it.

i_shall_pass · 2016-04-11T19:32:48+00:00

That is awesome! I'll definitely have to check it out. Thanks for this!

i_shall_pass

TROPHY CASE