These guys didn't do their homework correctly. Keeping aside commercial vendors; their own garage setup for doomed to fail with their coverage (or lack thereof). Garbage in, garbage out.
I would urge you to watch a statistical debunking of these so-called "global goodness" metrics. Sanjeev Sanyal does a good job of it [1],[2],[3]
Multiple organization(s) that manage such indices are, turns out, funded by the same cabal who want to concoct a narrative. They are not unbiased.
The fugitive is the leader of the Khalistan-independance movement, eventho the majority lies in Pakistan. Yet, they want to secede from India. There are numerous reports he's terrorist being financed by Pakistan. I hope India adopts doesn't go easy on these terrorists.
Didn't think I'd see EJ mentioned here. I distinctly recall planning and reading raiding strategies in there fur hours. I think there largest Onyxia thread was started by me.
Glorious times.
I saw the video the day it came out. Its an OK video, but I question the timing in wake of the upcoming elections and Modi leading the G20.
Typically I don't call out "ejection e manipulation" or "external interference", but I'm increasingly starting to suspect the intentions of the BBC (and other media)
The metrics you mention are not poor, but our data is poor. Furthermore, numerous research shows HDI and GDP are flawed (but legacy) metrics - this is exasperated by the poor quality data available in a chaotic country like India
There is a sampling bias at play right here in HN with the Modi-bashing comments. Indians, and India, is doing great overall. Modi's leadership has played a big role in this.
Indians are (generally) emotionally people, and by no means is it an authoritarian state. In fact, we need wise leaders with vision to manage this population.
Companies hire tech workers to stifle their competition; whilst keeping their workers 'sedated' on fake projects (i.e. projects that are paraded as important, but the 'inner-circle' knows well its just to keep the nerds happy). During tough times, its not unreasonable for a company to trim their fat.
Personally, tech and academia has been bloated for over a decade now. So no foul here.
FASTQ is not for Excel, obviously - although you can still explore it in the shell.
Nonetheless operating directly on FASTA/FASTQ files is often a "one-time" preprocessing task. You then serialize the preprocessed data and continue on from there.
FASTA (and its various incantations) are not going anywhere anytime soon.
The "bioinformatics formats" might be terrible, but they work. In fact, they are meant to be Excel-readable which keeps my collaborators (and me) happy. Coming from a CS /programming background, it is natural to feel the urge to "fix" the formats (<insert relevant XKCD>), until you realise that there are a libraries that easily handle serialization/parsing.
Besides, "bioinformatic formats" is a meaningless word anyway. FASTQ, VCFs, BCL, AIRR-seq -- all different and it just works.
I will bite. I dont think you care as much as you claim (or think) you do. Its likely you are not respected amongst your peers (for whatever reason) and you feel alienated. I've seen too many employees cite "lack of autonomy" because they want re-write code in Julia (for example) instead of prioritizing tasks they were hired to do. They think management doesn't "get it".
> But my personality finds it difficult to ignore things that are wrong
That's what you think. Maybe you are a man-child throwing a tantrum? The tech world is filled with such folks.
Even if everything you said is accurate, you will be happier if you dont play the victim card.
Early in my career, I took to heart such books and articles and often felt guilty and lessor-programmer when I cut corners. Here's my 2 cents now:
- Some of this is the coding equivalent of "6 rules for financial freedom" or "6 ways to find your dream soulmate". Generic advice that doesn't reflect highly nuanced reality.
- These rules are guidelines at best. There are justifiable reasons to break them; which I do often. Albeit this requires experience (and dare I say, wisdom). For example, refactoring code into a separate function levies a cost (of indirection) on the reader. Therefore copy-paste is sometimes fine.
- Clode "cleanliness" is a moving target. For a coder's mental health and value proposition for his project, he/she should know what code can afford to stay dirty.
I started my own bioinformatics+AI services firm that specializes in cell-type specific biomarker discovery and immune-repertoire profiling (i.e. we use single-cell and NGS technologies). I have developed a pipeline that integrates/automates state-of-the-art algorithms, which I use to serve clients (biotech and academic labs).
My clients are mostly local (i.e. Switzerland) acquired through word-of-mouth. Client acquisition is a challenge because I have to juggle sales and execution. However I am super excited to be in this field because I believe this is exactly what precision medicine is.