The Biostar Herald publishes user submitted links of bioinformatics relevance. It aims to provide a summary of interesting and relevant information you may have missed. You too can submit links here.
This edition of the Herald was brought to you by contribution from Istvan Albert, and was edited by Istvan Albert,
Are you interested in performing splice-aware quantification of your #scrnaseq data, obtaining unspliced, spliced, and ambiguous UMI counts quickly & in <3GB of RAM? If so, check out the new manuscript by @DongzeHe, @CSoneson and me on #bioRxiv https://t.co/07iGAXn5xz. 1/🧵
— Rob Patro (@rob@genomic.social) (@nomad421) January 6, 2023
Are you interested in performing splice-aware quantification of your #scrnaseq data, obtaining unspliced, spliced, and ambiguous UMI counts quickly & in <3GB of RAM? If so, check out the new manuscript by @DongzeHe, @CSoneson and me on #bioRxiv https://t.co/07iGAXn5xz. 1/🧵
— Rob Patro (@rob@genomic.social) (@nomad421) January 6, 2023Is the mRNA mature or nascent? Find out!
(PS: the memes are your additional reward - like donuts at a weekly seminar)
submitted by: Istvan Albert
mapquik: Efficient low-divergence mapping of long reads in minimizer space | bioRxiv (www.biorxiv.org)
On the human genome, mapquik achieves a 30× speed-up over the state-of-the-art tool minimap2, and on the maize genome, a 350× speed-up over minimap2, making mapquik the fastest mapper to date.
submitted by: Istvan Albert
An ISO-certified genomics workflow for identification and surveillance of antimicrobial resistance | Nature Communications (www.nature.com)
Here, we report the creation and validation of abritAMR, an ISO-certified bioinformatics platform for genomics-based bacterial AMR gene detection.
We validate abritAMR by comparing with PCR or reference genomes, representing 1500 different bacteria and 415 resistance alleles. In these analyses, abritAMR displays 99.9% accuracy, 97.9% sensitivity and 100% specificity. We also compared genomic predictions of phenotype for 864 Salmonella spp. against agar dilution results, showing 98.9% accuracy.
submitted by: Istvan Albert
Ancestry dynamics and trait selection in a designer cat breed | bioRxiv (www.biorxiv.org)
All about cats and dogs, the cat edition.
submitted by: Istvan Albert
Ancestry-inclusive dog genomics challenges popular breed stereotypes (www.science.org)
All about cats and dogs, the dog edition.
submitted by: Istvan Albert
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