Tag Archives: Q&A
Play it again, SAMtools. Q&A with the SAMtools team on 12 years of providing bioinformatics “glue”
Scott Edmunds - February 17, 2021
Today we publish the first update in 12 years describing what’s new in SAMtools, and for the first time the associated BCFtools and HTSlib software library. Here is a Q&A with the authors.
Q&A with Parice Brandies on the Antechinus Genome
Scott Edmunds - November 25, 2020
Parice Brandies presents a Q&A and video on her GigaByte paper on the brown antechinus genome (Antechinus stuartii), a fascinating marsupial with many biological surprises to explore.
Accessing and reviewing Controlled Access Data of Rare Cancers. Q&A with Matthieu Foll
Scott Edmunds - November 4, 2020
We have a Q&A with author Matthieu Foll from the WHO/(IARC on his new GigaScience paper presenting multi-omic data from rare lung neuroendocrine neoplasms and his experience having the precious Controlled Access data peer reviewed by named peer reviewers.
Coronavirus research needs to be a marathon, not a sprint
Hans Zauner - August 18, 2020
Not only epidemics themselves come in waves, also research into emerging infectious diseases has ups and downs, a Gigascience paper published today reports. The authors at Ben-Gurion University of the Negev analysed more than 35 million papers and explored research (scientometric trends) related to nine different infectious diseases. The scientific literature screened for this study spans 20 […]
DNA day 2020: The genomes of Dominette and Esperanza
Hans Zauner - April 25, 2020
It’s DNA day, celebrating two historic milestones: The publication of the structure of DNA in 1953, and the completion of the human genome project in 2003. What better occasion could there be to take a step back and marvel at the breath-taking progress in genomics over the years. For this year’s special DNA day blog, GigaScience […]
Reproducible Classification. Q&A on ShinyLearner & the CODECHECK certificate, pt. 2
Scott Edmunds - April 8, 2020
This week we showcased a new way of peer reviewing software, testing code in an independent manner and providing a CODECHECK “certificate of reproducible computation” when the results in the paper can be reproduced. We’ve written a post on the CODECHECK process featuring a Q&A with CODECHECK founder Stephen Eglan, and here we’ll provide a follow […]
Certified Reproducibility. Q&A on ShinyLearner & the CODECHECK certificate, pt. 1
Scott Edmunds - April 7, 2020
Out today in GigaScience is ShinyLearner, a new tool to make it easier to perform benchmark comparisons of classification algorithms. This tool stands out by making this process super systematic and reproducible, and despite needing to interface with many different libraries and languages it uses software containers (and a CodeOcean demo) so end users don’t […]
iMicrobe: Fostering Community-Driven Science and Data Discovery. Q&A with Bonnie Hurwitz
Nicole Nogoy - August 2, 2019
In this data-driven era, research is faced with new challenges, from sharing, storing and accessing data, including how to better integrate data to answer big questions in science. With many data repositories available, it is hard to maintain them all – some repositories are forced to close – meaning loss of access to invaluable datasets. […]
Power to the People and Their Data – The Open Humans Way. Q&A with Bastian Greshake Tzovaras and Mad Price Ball
Nicole Nogoy - June 27, 2019
In the data driven era, not only in research but in our day-to-day lives, people are creating more and more personal digitized data that enables human-participant research in social sciences and personalized medicine. However, with numerous data streams and types this raises concerns such as how to merge and share such data, as well as […]
Meet the GigaScience ICG Prize Winner, Pt. 2: Lisa Johnson Q&A
Scott Edmunds - December 14, 2018
Yesterday we published the winning paper of the second GigaScience prize, with additional detail and coverage in GigaBlog describing why we and the judging panel found it so novel. This was an impressively case study in reproducibility, reassembling & reannotating around 700 microbial eukaryotic transcriptomes to demonstrate this approach can aid in revealing new biologically relevant […]