Is someone interested in how to use Nextflow with Docker workshop in Hungary during late summer?#nextflow #docker #bioinformatics #pipeline #aws #genomic #cloud #reproducibility

I've been working on a total rewrite of dtplyr, which lets you take advantage of (almost all of) data.table's speed while using dplyr syntax. The package is still in development, but I'd love for you to try it out and let me know how it goes: dtplyr.tidyverse.org #rstats

Just got the The Carpentries (at @[email protected]) instructor certificate. We will likely organize an official #datacarpentry and/or #softwercarpentry workshop during autumn. Cannot wait :)

Luca Cozzuto from the Centre for Genomic Regulation (CRG) Bioinformatics Core @ CRG Describes a Nextflow pipeline for processing nanopore sequence data Challenges exist - how to remove very large intermediate files - how to use GPUs in the best way (will probably use cloud for rather than cluster) #nfcamp19

#Rstats: Repeated measures ANOVA is traditionally a horrible nightmare in R. The `afex` package changes this. Easily specify a rm-model that gives identical results to SPSS using `afex::aov_car`. Automatically applies the GG correction. install.packages("afex") #phdchat

Today is about building #nextflow pipelines. #Bioinformatics Nextflow #pipelines #socks

2020 International #Bioinformatics #conference in #Thessaloniki, Greece. Mark your calendars for November 20-22, 2020. More to come soon! #Hbioinfo2020 Elixir Greece ELIXIR Europe ISCB Student Council #ISCB

Thank you to GISAID Initiative and the Bioinformatics Research Group at Szentagothai Research Centre, we now have 2 sequences from Hungary at nextstrain.org/ncov?f_country…. This new sequence nests separately from the first, grouping with viruses from the Netherlands and Switzerland.

Thanks to #opendata sharing on GISAID Initiative, nextstrain.org/ncov is updated with 59 new #COVID19 #SARSCoV2 #hCoV19 sequences! These are: - USA (19: 2 WI, 17 CA) - Brazil (1) - Hungary (1) - Spain (1) - France (23) - First 2 seqs from Algeria! - First 12 seqs from Senegal! 1/4

PSA: if a bioinformatician is able to do any analysis fast, it is quite likely not because the analysis is easy. It is because the bioinformatician has spent hours prepping a system that allows to do it fast.

The second session in the Galaxy Project-ELIXIR webinar series will present the analysis of the #SARSCoV2 genome: is.gd/rYsll4 Join us on Thursday 7 May at 17.00 CEST, ❗️Register: is.gd/UzCMW9 #ELIXIRvsCOVID19 de.NBI / ELIXIR-DE Galaxy Australia ELIXIR Belgium

Historical moment in #filovirus research, sequencing the complete genome of #lloviuvirus in 50 minutes after a decade. Oxford Nanopore Tóth Gábor Endre #filoviridae #emergingdisease #bat #virology

I have the opportunity to learn within the #HelloAIRIS training by EIT Health from 15 June to 10 August 2020 we'll learn about #AI in #Healthcare. Looking forward to hearing from esteemed experts from Leitat, GE HealthCare, and KTH Royal Institute of Technology

Thanks to #js4shiny I FINALLY fully wrapped my head around making my own proper #rstats shiny input binding! 🎉 You can even specify colors! 💅 Feel free to test it out here: github.com/MayaGans/shiny…

COVID Risk Chart xkcd.com/2333/

I have a statistics joke but the average person would think it’s mean.

The hardest part of data science isn't the technology

Bioinformatics in a nutshell: "Yeah, I can have that up and running in anywhere from 2 days to 2 months. Depends on like 200 things, some of which I don't even know exist yet."

first release of new rare-disease workflow project. it's early days, but if you are familiar with nextflow and have rare-disease cohorts, you can get high-quality SNP/indel candidates from *.cram/bam with a single command. github.com/brentp/rare-di… feedback welcome.