@DLabAtBerkeley I’ll be back there soon! Will be back in two week just in time for python bootcamp at D-lab.
@DLabAtBerkeley I know those people!
Hi @aculich @ivanov
@WrightingApril Ethan might have some insight. My suggestion is do it first. They can suffer thro er use Git all semester long. @ethanwhite
shaka_lulu Help save Snapshot Serengeti and help study animal behavior! indiegogo.com/projects/save-…
@ATredennick @naupakaz heh. My order from Amazon just arrived too. Packs of reds and greens.
@shaenasaurus I suppose I would too.
@hi_em Are you coming to AGU?
@jdyeakel Thanks man!
@eperlste Gone from 3-9 and 12-15. I’ll ping you after that.
@eperlste shortest tweet up ever.
@eperlste are you sitting on a bench on Shattuck ave? Think I just drove past you.
hspter Was just able to recreate over half of the figures in my dissertation in less than half an hour bc I used reproducible methods. :D
beckerhopper Coming to #ESA2013 and still don't know how to get started with R? Head to OUP and grab Getting Started with R. Then see @rOpenSci etc.
@vsbuffalo Just noticed that my browser has ~40 tabs and my first thought was “geez I pulled a Vince again”.
@tpoi or confetti. good luck!
badbanana I totally woke up on the wrong side of the conference table this afternoon.
@emckiernan13 heh, not entirely sure about that. ;)
@srsupp @weecology I’m excited to meet more weecologists beyond just @ethanwhite and @DanMcGlinn.
@emckiernan13 I was a similar jerk to my mom at that age.
@DigitalanUK You’ve seen the full video, yeah?
youtube.com/watch?v=Wqg-zu…
@rmounce @DavidJohnGibson excited to hear more as well.
@houshuang @mfenner The holy grail. citation managers are not a hard technical problem yet here we are in 2013.
@se_hampton too bad you won’t be at #ESA2013. Doing a half day #ggplot2 workshop on Sunday.
@CameronNeylon Ritual coffee, take bart to 24th. Likely packed given it’s Sunday.
Revkin Superb @amy_harmon story: Florida man's quest for gene that can save the orange. nyti.ms/15oJL1P Could success demystify #GMO tech?
@kara_woo fucking jetlag.
@kara_woo Yes. Use the flickr.photos.licenses.setLicense() function.
@johnnyderiggi What other APIs have you built?
@phylogenomics thanks for the post!
phylogenomics The Tree of Life: Cool open science project: rOpenSci just got 180K funding boost goo.gl/fb/6dzWL
@ucfagls Very cool. Would love for this to be incorporated into ropensci. Happy to test, contribute etc as needed.
The emperor tamarin: Because somebody told evolution mustaches are “in."
bit.ly/1bZw0f7
The bay bridge in 1935.
bit.ly/1bZtt4A
True facts about owls.
youtube.com/watch?v=XeFxdk…
@bendmorris TIL that ~. will kill a hanging ssh without having to close that window.
@fperez_org and @jhamrick
@jebyrnes @GrunerDaniel Jarrett: I randomly met that cartoonist (David Malki) 2 years back and he gave me a signed print of that one.
revodavid Tell your friends and coworkers about R with this 90-second video: bit.ly/18BBlp0 #rstats
@GrunerDaniel heh. I cited that cartoon in an article on why scientists should use Git for manuscript writing.
@MikeTaylor heh. Was just about to email you re: my Sep trip to Bristol. Will wait till your return lest it be lost in your inbox.
@revodavid slick! Love it.
@ucfagls Have you seen @cboettig's knitcitations? github.com/cboettig/knitc…
@genetics_blog it was acquired a few years back by github. I hate the ugly mess that is slideshare but not enough people on speaker deck.
@recology_ heh. Similar boat. Next two months = bat shit crazy.
ryneches Are you going to ESA 2013? Come to our special session on #OpenScience! There will be goodies. 3D printed googies. eco.confex.com/eco/2013/webpr…
@BioMickWatson Titus does not spin up EC2 instances. They spin up when they sense Titus nearby. #titusischucknorris
HKK ✈ SFO pic.twitter.com/fcfwEq5jbI
More #airportscience today.
Heading to #ESA2013?
There are a ton of great workshops + sessions organized by @nceas @DataONEorg and @rOpenSci
bit.ly/144oE81
BioMickWatson R thinks @ctitusbrown is complicated #titusischucknorris
@ucfagls sorry, many threads being confused here. CRAN is great for package deployment. Not disputing that. We’re discussing base R install.
@ESA_Prez2013 @recology_ Thanks Scott! We appreciate you looking into this.
@rdhyee Works for me. But I’m currently traveling in Asia and might be hitting a different server.
@seanjtaylor Any areas you are particularly interested in?
@scicheer link’s broken.
@noamross @hadleywickham Then as you say help them out over lunch. Otherwise workshop will stall helping people get set up.
@noamross @hadleywickham Plan is to get everyone to have a local copy of everything. For anyone stuck, rstudio server will work for the day.
@GigaScience fantastic. Thanks Scott!
MVickySchneider Registration open for "Workshop on data science using R" @GenomeAnalysis with @_inundata and @rOpenSci bit.ly/17xsTWS
@GigaScience is there a link to the full text of the poster somewhere?
@CameronNeylon Likewise. We might be ships passing with me traveling more to your side of the pond :)
@eldromedario Awesome! That’s what we want to hear :)
cathbrooksbank We have to treat citation like love, not money - if we give it away we've still got more to give. @CaroleAnneGoble at #ISMBECCB
rOpenSci Tutorial for rWBclimate (#rstats wrapper for World Bank climate data) now up on our site bit.ly/15cJEGv
How Long Should You Keep Data?
bit.ly/15EldRe
↬ @datadryad
Hint: At least 6 years post publication.
@juliehache @ctitusbrown Don’t forget Bluth Ipsum bit.ly/11aWGDJ
@southmapr I’m running a 1-day R bootcamp at TGAC (bit.ly/162n1Dx). Thanks for the offer! much appreciated. Will get back to you.
@ucfagls @hadleywickham You’d be surprised.
hadleywickham @recology_ @noamross eventually rstudio will bundle R, or install automatically. plus rtools, plus pandoc, plus git, ...
@hadleywickham Planning to use RStudio + Rstudio server for all upcoming @rOpenSci workshops. CRAN is unintuitive to beginners.
@robinkraft Have a safe ride dude.
joelmcglothlin An academic who claims to work 80-hr wks is a) being dishonest w him/herself and/or you or b) a 1-sided workaholic you don't want to emulate
@emilysdarling well done! yay you.
Chris_Evelo We hide data in scientific publications so well that we need a very advanced research field to get it out again, time for a change #ismbeccb
@LizNeeley that’s the third rule of airport club. :)
@nextgenseek thank you!
@melissaterras haha. I feel your pain.
@GigaScience what meeting is this and where is it?
GigaScience Phil Bourne on what needs fixing in the research cycle #wk3 #ismbeccb pic.twitter.com/eO3PiaaA0P
@TheAtavism @Sakkaden Hard to see that figure with all this vomit on the screen. #worstfigureever
@se_hampton But if there are packages for which you need old versions, don’t set ask=F.
@se_hampton Be sure to run update.packages(ask=F) if you just want to get everything current.
ficaryl R has an extreme take on parenting... Definitely one for @shotsofdespair #screenshotsofdespair #Rstats pic.twitter.com/YIY2VAkaMD
@profjsb <3 4 Barrel. Come for the coffee. Stay for the people watching.
@arpatoz Gorgeous! Where is this? RMBL?
@phdpqc yes, IMO. I’d also note that Y is the current affiliation.
jessicablois "This is a 7 year postdoc" blogs.scientificamerican.com/guest-blog/201…
@phdpqc @yoavram built markx (bit.ly/W35t80) with it and an intern I’m mentoring built this (bit.ly/1aCK6A6) with flask.
@phdpqc Flask is great for prototyping. We use it for many projects.
@ethanwhite @ctitusbrown I’m trying to picture the appropriate Onion headline.
Area Bioinformatician get big grant.
@recology_ @hlapp @scioClimate I do it all the time. Mostly hit sometimes miss.
@ctitusbrown Congrats Titus! Well deserved.
@JacquelynGill @recology_ It’s the fault of the system. Hopefully it’ll change in the future.
@TrestleJeff Just noticed you now work @rstudioapp Congrats! Is this a new development?
@hspter So glad you got a new start. :)
@TalkScienceToMe hah. We pay $2400 for a short ambulance ride! Jokes on you!
oh, wait. no. Jokes on us. Stupid Canada and fancy health care
@kara_woo @labroides @JacquelynGill Maybe bike a lot harder and you can be there too.
ok, I’m so sorry. #neednewpuns
@GrunerDaniel sent you an email about that.
@elitabaldridge and index them. Younger me did a join without one. 42 hours! After indexing 1.2 minutes!!
@JacquelynGill @recology_ @sjGoring @infotroph web pages. @ucsc deleted all my postdoc pages w/in 48 hours of finishing. 2/2
@JacquelynGill @recology_ @sjGoring @infotroph it is a little. But easy to overcome. Makes more sense because schools recklessly delete…1/2
ctitusbrown Professor, n. person who juggles family, research, teaching, mentoring, and travel. Typically bad at the juggling.
@JacquelynGill @Drew_Lab You kids have fun. Following another conf this weekend = cognitive overload.
@Drew_Lab @JacquelynGill Are you both at the same meeting?
@Drew_Lab I prefer synthesis too. Running commentary is impossible to follow without the context of being in the room. Noise for followers.
@IrreproducibleP We have a similar goal with the @rOpenSci project. Make research more reproducible and transparent.
@cosmicpinot Feel your pain. Doing the same next week.
TonyCowin Sometimes bad translation makes beautiful poetry. pic.twitter.com/kLJ8Nk0ImT
irqed 99 little bugs in the code
99 little bugs in the code
Take one down, patch it around
117 little bugs in the code
@ramnath_vaidya @jcheng but not data.table, right? Just to avoid confusion.
@treycausey I do that when I knit documents/reports rather than for my regular prompt. But still a cool tip.
SirPatStew How very pleasant Berkeley is, climate, architecture, landscape, FOOD. We should all be so lucky to live here.
jasoncosta This was the plan for BART routes back in 1956 for the Bay Area. This would have been so great if it had happened. sfist.com/attachments/SF…
emhrt_ Making climate maps with @WorldBank climate data and @rOpenSci ropensci.org/blog/2013/07/1…
@nhcooper123 What’s a good email where I can reach you?
@statslabdublin @nhcooper123 Looking over post London schedule to see if I can fit this in. Will get back to you early next week.
@IanMulvany You can also clone wiki and write md locally. Push when you’re back online.
@IanMulvany what brings you here?
@IanMulvany @kaythaney yay. I’ll be there too. Drink up!
@nhcooper123 If you get in touch with @swcarpentry, the great folks at SSI can help organize other instructors. cc@npch
@nhcooper123 I’m booked up for this trip but will be back again in the fall. An email to admin@software-bit.ly/13p7BKL would be good
Why so gloomy, babirusas?
bit.ly/15OZHJs
#wtfevolution
@MangoTheCat Awesome! I’ll respond to your email shortly.
@flimsin Can’t do the 11th since I’m doing one in Oxford that day. 9th would be great if it works.
@kara_woo Adsense: Traveling to the field? With a BABY?? Get bear insurance *.
* Coverage not available in all areas.
@ESA_Prez2013 Can you give us an ~ ball park of how much it costs to have wifi this year?
@ESA_Prez2013 ESA now gets ~5k attendees. Can you spread the cost over the registration fees + any extra donations? Or request sponsors?
@rmounce Final ms has already been accepted but still great to keep the comments going on the preprint. :)
@kara_woo over.
@ethanwhite @recology_ LinkedIn? ResearchGate?
*le sigh*
@NHoughSnee @srsupp @skmorgane @ethanwhite Great post! Looking fwd to discussing more in person at #ESA2013
skmorgane Nice overview of recent dialogs on data. "#DataSharing in #ecology-risks, rewards and expectations?" wp.me/p2xjMM-xw via @NHoughSnee
@dbiello @kaythaney @shaka_lulu I’ve got a bad case of #bkfoo envy right now.
BigDataBorat Today Dmitry kidnap by terrorist. Ransom note say "Deliver 10 millions dollar or we make him program in R."
@southmapr Hi Andy, I’ll be in Norwich from the 5-7th of September. We should meet up if you’re around and have some time.
@flimsin bummer. I’m giving a talk at AGU this year for the first time.
MVickySchneider Half-day workshop @GenomeAnalysis on "Basic Principles of R"
bit.ly/15pUQ1g
@shaka_lulu Awesome! Congrats!
@bendmorris Congrats dude! and congrats @NESCent for getting Ben.
@xieyihui @davidjayharris @noamross @ramnath_vaidya Slidify and Rstudio are your best options right now.
puls Current status: pic.twitter.com/fAFyfinKZ2
@IanMulvany That sounds like a great start compared to fulltext.pdf or
16398563556.pdf
@gvwilson @npch Greg, talk about timing. bit.ly/15KYDpS
@caitpickens Have you moved to the bay area yet? or working remotely?
scheidegger Another call for reproducible computational experiments: software.ac.uk/blog/2013-07-0… found this on r/programming. reproducibility is mainstream?
@flimsin Running a workshop in Bristol on 12-13 so those days are out for other talks.
@flimsin 14 is a sat though so may not work for the dept.
@flimsin That would be awesome. I’m there from the 5th on. Talking on the 6th, 11th (in Bristol that evening) busy 12-13. 9th and 14th work
@ctitusbrown @kaythaney We had the same push back for being the first R package with CC0. Had to send them more documentation.
@ctitusbrown
Outreach and communication carpentry.
This should be a 1 day bootcamp taught everywhere.
@ctitusbrown not complaining. I think it’s great (part of the choir here).
@carlystrasser John needs to throw a few TPS cover sheets on that report to make it meet requirements.
@carlystrasser Great post. Altmetrics alone won’t do it. These types of projects also need assessment.
@ctitusbrown heh.
Title: The Titus Scheme.
Berkeley’s ischool now offers a masters in Data Science.
bit.ly/12MigLa
@seanjtaylor \●/ ← Sean throwing up hands in the air.
@jessicablois Sorry yes, I meant posts not comments.
@seanjtaylor This meme’s been done though!
bit.ly/12MgOID
@jessicablois ok first one was harsh (but def applies to most recent post IMO). But yes, the comment behavior is tiresome.
Many posts on the “leading” ecology blog amount to nothing more than concern trolling. Said author telling readers they “misread” is worse.
@hmason bit.ly/10ZYwam :)
@jebyrnes *sigh*
@brembs Love the hashtag!
@ficaryl it’s a fantastic package. I use it every day. Happy to answer questions if you have any.
swcarpentry Computational Competence for Biologists: software-carpentry.org/blog/2013/07/c…
@djhocking @swcarpentry Yes, sorry the lack of wifi is very unfortunate. Hope @ESA_org can work something out before the meeting.
@djhocking @ESA_org Doesn’t seem like it. At least for my wshops we are going to recommend downloading w/ hotel wifi before coming to conf.
@caitpickens Yet another GitHub clone branded as GitHub for Science. Unimpressed.
R docs are now available in Dash! bit.ly/1bHaLgv
Thanks @kapeli #rstats
@southmapr Thanks for the tweet updates, Andy! Bummed I missed Spain due to a travel conflict. Will definitely be @user2014_ucla
rOpenSci We're super excited to announce our newest board member MacKenzie Smith - University Librarian at @ucdavis - bit.ly/1bFRqME
@kara_woo if you have more suggestions for women in open science we should consider for our board, please send them our way.
pathogenomenick Ever get the feeling no one is reading all these papers?
@kara_woo thanks Kara!
@kara_woo @hspter she’s lying. Everyone in Siberia wears fuzzy hats and ugg boots. They also ride bears to work. They have bear hov lanes.
@MLBrook Get off my island!
@JeromyAnglim Worst part is that these journals then outsource the job of converting Word docs back to XML. #publishingfail
@swcarpentry How about PLOS Computational Biology?
KarlTheFog Summer has officially arrived in San Francisco. Don't leave home without your pea coat, scarf, and memories of sunshine.
@xieyihui Do it!
@skmorgane @BrunaLab @ethanwhite
eee34da (HEAD, origin/master, master) Ethan White successfully home. Closes issue #322 [skmorgane]
@ProfLikeSubst @ethanwhite @skmorgane I imagine they have a private GitHub repo for the household and file issues for pending stuff.
@ethanwhite What external battery you got? I’ve been contemplating buying a Hyperjuice myself.
ellisonbg #xkcd mode for the #ipython notebook: bit.ly/1dwtsBJ
@JeromyAnglim Found the link: bit.ly/13aaYFg
@JeromyAnglim I pandoc Word → pdf
Then use pdfcat to combine all. PDFtools is amazing but can’t find orig link
bit.ly/13a7dzy
@skmorgane @ethanwhite /me quickly endorses Morgan for *not eating offspring* on LinkedIn.
@jessitron except for those damned conference calls and scheduling.
@ethanwhite Why am I not surprised your machine is named Serenity! #awesome
@mfenner Seen this? → bit.ly/12wtpo0
@drnickisaac @ethanwhite While rocking a @PLOS shirt!
shaka_lulu #sciencetrain is aboard the C train, just passing 86th uptown instagram.com/p/bti3KFBhVF/