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Support specifying bed(Graph) input files as .gz #39
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Hi @jackh726 This seems like a great potential tool, but my bed files tend to be very large, so it would be awesome if you allowed for compressed input (maybe through https://github.com/luizirber/niffler). Mostly commenting so I'll get an update if there is progress. Cheers, |
Cool crate! I had expected to just use the flate2 decompress, but may try niffler instead (for the extra support). I'll work on getting this in this weekend - it's ultimately a fairly small addition, I just need to get to it. |
Awesome, great news! Overall I agree it should be pretty easy as it has been easy in some other "bed" crates I have worked in e.g.: Cheers! |
Hi @jackh726, I have been playing with the tool, and it seems that streaming input to bedtobigbed works, which is awesome, but I just wanted to double-check that this is intended to work generally?
If it is supported, then this is an excellent workaround for compressed files for now. Cheers, |
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