Where communities thrive


  • Join over 1.5M+ people
  • Join over 100K+ communities
  • Free without limits
  • Create your own community
People
Activity
    DonStephano
    @DonStephano
    med-student in semester 1 :D :D probably more comedy than thriller...
    teresa-m
    @teresa-m
    Wolfgang Maier
    @wm75
    @teresa-m @Paramartina I just talked to Andrew Straw who is responsible for the elective module Bioinformatics on 22&23 July. Turns out he most likely really needs the CIP-Pool throughout these days, sorry. My understanding (and hope) is that this is not a major problem for your workshop.
    Paramartina
    @Paramartina
    No, should not be a problem (except esthetic). I still have to test the logins, but i am optimistic that they should work
    Regarding the things in my lab: i have 1 brandnew Flongle and 1 Nanopore Field sequencing kit, from the old yeast extraction kit there are still two columns -> that should work for the two pupils groups, but then we will need to test the new kit/protocol or order more from the old one...
    teresa-m
    @teresa-m
    @Paramartina: so for next week we have enough columns and everything for two groups, right? And for the next workshop we need to see. We still have the extraction new yeast extraction kit in the galaxy fridge. :see_no_evil:
    Paramartina
    @Paramartina
    yes, we have enough columns for the pupils
    Milad Miladi
    @mmiladi
    Hello, what is the time schedule of pupils workshop tomorrow?
    For the data analysis part after finishing the sequencing, what you would basically need to do is to upload the fastq file to galaxy and follow here https://streetscience.community/protocols/beer-data-analysis/ (step All-in-one Galaxy workflow (simple))
    The fastq file should be located on a experiment name directory under /var/lib/MinKNOW/data/. Look for the passed subset
    Bérénice Batut
    @bebatut
    Thanks @mmiladi
    Do you have previous data (best from Chimay)?
    We Can not do the sequencing today
    Bérénice Batut
    @bebatut
    thanks
    Bérénice Batut
    @bebatut
    @mmiladi which fastq file should be used?
    Milad Miladi
    @mmiladi
    URW.
    Bérénice Batut
    @bebatut
    ?
    Milad Miladi
    @mmiladi
    The one labeled as passed. So would be number 6 labled "Set0_Passed"
    Bérénice Batut
    @bebatut
    ah ok. I lot the tags after importing the history
    Milad Miladi
    @mmiladi
    It's not only the data but the process ones as well.
    You only need entry 6 (the fastq file) and this shared workflow: https://usegalaxy.eu/u/milad/w/metagenomics-krakan2
    Bérénice Batut
    @bebatut
    thanks
    Milad Miladi
    @mmiladi
    no problem :)
    I still have the open question :D
    What is the time schedule for tomorrow?
    Bérénice Batut
    @bebatut
    the pupils should arrive at 8:15
    we will meet at 8
    Milad Miladi
    @mmiladi
    Aha ok. Thanks. Are you going to do sequencing?
    Bérénice Batut
    @bebatut
    no
    we do not have flowcell
    (the order was delayed)
    Milad Miladi
    @mmiladi
    Ok thanks for the info.
    Where does it take place?
    Bérénice Batut
    @bebatut
    in biology department
    Milad Miladi
    @mmiladi
    I'll try to join at some point (depending on the reliability of my bus plan to Freiburg) ~10:00-11:00
    Bérénice Batut
    @bebatut
    I made:
    • the workflow public: Shared data—> Workflows —> BeerDEcoded - StreetScienceCommunity
    • the history with the input sequences public: Shared data—> Histories —> Chimay Red - BeerDEcoded - StreetScienceCommunity
    Milad Miladi
    @mmiladi
    :+1:
    Bérénice Batut
    @bebatut
    Thanks @/all for the workshop the last 2 days
    it was awesome!
    the pictures are online here: https://www.flickr.com/gp/134305289@N03/r0X8gn
    Björn Grüning
    @bgruening
    Top! Really cool, thanks all!
    F. H.
    @heylf
    Yeah it was really fun. Thank you al. It really went well this time. We‘re getting better and better ^^
    Anika
    @erxleben
    curious to hear about it :-)
    Milad Miladi
    @mmiladi
    Wonderful 🎊
    Bérénice Batut
    @bebatut
    Some nices ressources from an outreach program on dna : https://www.dnabarcoding101.org/
    teresa-m
    @teresa-m
    Ahh cool :-)
    In 1988, Cold Spring Harbor Laboratory established the DNA Learning Center (DNALC) as the world’s first science center devoted entirely to public genetics education