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Scientists rename human genes to stop MS Excel from misreading them as dates

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Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#31

Why in the world is excel the application of choice? Last time I tried to use it (for much less complicated things than genetics), it choked and became unusable when the filesize exceeded about 6MB. I have yet to encounter a spreadsheet oriented task that isn't better implemented in gnumeric. Maybe we should also shorten all publications so adobe reader can display them without crashing?

Excel is the application of choice because the world runs on Excel. Get with the times.

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#32

Quote: "There’s no easy fix, either. Excel doesn’t offer the option to turn off this auto-formatting..." What kind of loopy Excel variant the article's author is using? It's right there in settings, you can easy stop auto-formatting. Yes, default installation has it on, but it can be turned off.

From the article:

> Even then, a scientist might fix their own data, but as soon as someone else opens the same spreadsheet in Excel without thinking, errors will be introduced all over again.

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#33
post #7

To people asking, "why do they use Excel?" that's like asking "why must we be subjected to gravity?" The whole world's data ultimately comes from or ends up in an Excel spreadsheet. Sure, we might use other intermediate data storage methods, but in the end it's going to go into some scientist's or some politician's computer, and by golly it's gonna be in Excel. Trying to rally against Excel is like trying to rally ag…

> " To people calling, "why do they use Excel?" that's like asking "why must we be subjected to gravity?"" I respectfully disagree with this. Excel is fundamentally not suited to analysing *omics data. It's often the default program affiliated with a .csv filetype on people's computers, but trying to get an entire field of scientific research to rewrite itself based on its glorified bugs is...wrong, in my opinion. If…

Excel is not fundamentally suited, but it's fundamentally used.

I wish you luck, but I long ago declared defeat against Excel. I can't prevent everyone from using it. I have come to accept that whatever Excel does is what I have to live with, because someone, somewhere out there hasn't heard the anti-Excel gospel yet.

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#34

It's honestly amazing that Excel hasn't fixed this issue. It's pisses off an enormous number of users especially in basically any non-US country (even if 01/02 is a date, it isn't the second of January in most of the world...)

For Germany this converts to the first of Feb, and this way of entering dates is just so convenient, as you can type the whole date just using the keys from the num block. We do actually support this format in our app for date entry, simply because it's so convenient.

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#35
post #9

Or perhaps prepending them when typing with either a single quote, apex or double quote (left/center/right align AND consider as Text), like all the rest of Excel users have done for the last 25+ years?

You don't understand the problem. Read the article.

I read the article and parent is correct in part. However, equally the article touches on the fact that many people may use a spreadsheet and not all will be correctly trained to use their complex tools properly, in order to ensure data integrity.

I consider this a failing not in software or Excel, but in education and professional standards. Scientists can be expected to understand and use their tools correctly, since not doing so will taint their data.

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#36

Or perhaps stop using Excel?

What’s the alternative?

Well, everybody should set up their own, custom script powered favourite DB of course.

Ok, seriously, it would be nice to te able to recommend a alternative. I heard LibreOffice Calc is not really equivalent?

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#37
post #7

To people asking, "why do they use Excel?" that's like asking "why must we be subjected to gravity?" The whole world's data ultimately comes from or ends up in an Excel spreadsheet. Sure, we might use other intermediate data storage methods, but in the end it's going to go into some scientist's or some politician's computer, and by golly it's gonna be in Excel. Trying to rally against Excel is like trying to rally ag…

> " To people calling, "why do they use Excel?" that's like asking "why must we be subjected to gravity?"" I respectfully disagree with this. Excel is fundamentally not suited to analysing *omics data. It's often the default program affiliated with a .csv filetype on people's computers, but trying to get an entire field of scientific research to rewrite itself based on its glorified bugs is...wrong, in my opinion. If…

> Excel is fundamentally not suited to analysing *omics data

you are 100% correct. and yet it will continue to happen.

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#38

Quote: "There’s no easy fix, either. Excel doesn’t offer the option to turn off this auto-formatting..." What kind of loopy Excel variant the article's author is using? It's right there in settings, you can easy stop auto-formatting. Yes, default installation has it on, but it can be turned off.

Also you can single quote ‘MARCH1 to keep it as string. This is safer as when you share the file you don’t know if the next person has the same settings change you described. Either way, it’s only 27 genes they had to rename. Seems like a good choice on their part to just rename them. Hopefully they’re doing this check during the naming stage for new genes.

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#39
As a bioinformatician I'm not too fond of this shift. Software should be sculpted around our needs, not the other way around. It's basically submitting to the fact that we've stubbed our toes hundreds of times to the exact same rock and never learned.

But then again, I use Excel rarely, usually only at the very end of some analysis (even then I prefer R/Python libraries for visuals). So I do have sympathy for wet-lab researchers who rely heavily on Excel.

Re: Scientists rename human genes to stop MS Excel from misreading them as dates

#40
post #3

I think another question is that why isn't there a viable alternative to excel for this particular use case? Is there, perhaps, a market for niche spreadsheet applications that serve one particular market?

I’ve been wishing for something like this lately in the apple ecosystem: sort of a “plain text” tabular editor that can handle large data sets. Numbers feels like it’s designed for presentations more than data crunching, and Excel (or at least the price of excel) would be overkill for my needs (which largely consists of data cleanup, spot-checking, and quick calculations). I’d happily pay for an IA-Writerish spreadsh…

See this Exchange thread [0]

I personally use Table Tool for the most basic editing/collection.

[0] https://apple.stackexchange.com/questions/15946/free-csv-tex...

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