Viewing Large Text Files (like big GFF files) in Windows

I know, I know, many of you will say “just use Linux”. And this is true, but SignalMap from NimbleGen, which is quite convenient for viewing GFF files of ChIP-chip data, is just a windows product (and yes, I did try WINE as an emulator).

So if you try to load a 380,000 line file into Notepad (or even a much smaller file), Notepad will blow up. And wordpad even acts bad.

The good – no, great – free windows solution is Notepad++. Available here.
I’ve used it for a few years; it works great. Will easily load multiple 380,000 line files (like 40 Mb GFF files).

Notepad++ also fulfills other requirements for me: it clearly has a large-ish user base and is constantly being updated/upgraded. So it is a robust, free product.

Other good bits:
(1) will convert from Windows to Mac to Unix line endings
(2) automatically recognizes the line-ending type (important for looking at files)
(3) very good syntax highlighting for a wide variety of programming languages
(4) tabbed files means that you can easily switch from file to file
(5) it retains memory of your open files – so they will be there each time you open it
(6) good behavior when you move/change a file that you are editing – will ask you to reload/save/etc.

Some not-so-good bits:
(1) for big files, regular expression stuff is slow

Mark Bieda windows big files viewing gff files NimbleGen tutorial howto notepad problems

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2 Responses

  1. Excel 2007 works very well, as it allows for 1 million rows. Granted, this assumes use of windows, but I thought that was the point anyway…

  2. Csved for windows works very well for viewing and editing very large column based text files quickly. It can be used to sort, filter, remove columns, etc. The only minor drawback is that you have to specify the type of file separator (tab, comma, etc.) beforehand, and it can’t be set as a preference. The program is free and can be obtained at:
    http://csved.sjfrancke.nl/index.html

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