I’ve landed.

So, I think it’s time to return to blogging.  I’ve started in a new group and have begun feeling my way around in a new area – so, for those who followed me for Next Gen Sequencing in the past, you may be surprised that it’s likely to play a diminished role in my new position.  I don’t think I’m done in NGS, but it looks like I’ll have a little break from it, until it my new group completes a few upgrades, at least.

Are you curious?  I’m working at the CMMT in Vancouver, in the Kobor Lab.  I can’t say enough how awesome this group is, and how welcoming they’ve been (and I don’t even think they read my blog…).  I’ll also likely be collaborating with a few other groups here – but the extent of that is yet to be determined.

So what will feature prominently in my blog?  Well, that’s a good question.

It seems like Chip-Seq will come back.  I don’t think I’ll be returning to FindPeaks – I’ve got better ideas and more interesting plans that I hope to move forward on. It seems likely that I have more to contribute in this particular area, so I expect I’ll be starting a new code base that deals a bit more with the statistics of Chip-Seq.  The findpeaks code base has become a bit too big for rapid prototyping, so it’s time to step out of it to move forward.

I’m sure that epigenetics will take a front row seat in my work. That’s a major focus in this group, both for histones and DNA methylation, so I can’t see it not playing a significant part.  (I’m looking forward to working with methylation, which I’ve never done before…)

I’ll probably be working with Python – I’ve been thinking that it’s time to move away from Java.  Not that there’s anything wrong with Java, but I’ve heard really good things about Python, and I’m excited to start a language that seems to fit a little more naturally with the way I’d like to approach the problem.

I’m hoping to work with Open Source..  well, that hasn’t been discussed much yet, but I still believe strongly in the open source philosophy – particularly in the academic world.  I’d rather not work on closed source code in this environment.

I’ll also likely be working with a bit of Yeast genomics – it’s a great model system, and there’s still a lot to learn about regulation and epigenetics in that particular organism.  And there’s always the tie in to beer.  That doesn’t hurt either.

At any rate, things are still evolving, and I have a 500Mb stack of papers to read (yes, I’m saving paper), but I think that I’m back.  I may do a few reviews of the subjects I’ll have to read up on, which include the epigenetics of healthy ageing and childhood development.  Oddly enough, I think we can learn things at both ends of the human age spectrum, so why not?

And yes, I’ll try to keep the disparaging comments about Denmark to a minimum from now on, but I can’t promise there won’t be any.  Not, at least, till the lawyers finish working out who’s owed what.

8 thoughts on “I’ve landed.

  1. Welcome back! I love python. There are a lot of great packages out there for math and science. I think you’ll like it.

    • Thanks! I’ve been playing with python a lot this week and am really happy with it. I’ve even got pysam working… So I’m pretty convinced its the right way to go. (:

  2. Welcome back to both the blog world and Vancouver =) Things a bit hectic for me at the moment, but I’ll track you down to catchup soon since you’re still just down the street =)

    • Oh Really? I’m continually (and pleasantly!) amazed at how small a world science can be in Vancouver. Well, obviously going for a beer is now mandatory (-:

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