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,
Realizing the promise of biodiversity genomics with highly accurate long reads | bioRxiv (www.biorxiv.org)
Despite shorter reads and less coverage, HiFi reads outperformed ONT reads in all assembly metrics tested and allowed for accurate assembly of the repetitive ∼20-Kb H-fibroin gene
submitted by: Istvan Albert
From raw metagenome reads to phyloseq taxonomy table using sourmash gather and sourmash taxonomy (taylorreiter.github.io)
This blog post seeks to close that gap a bit by demonstrating how to go from raw metagenome reads to a phyloseq taxonomy table using sourmash gather and sourmash taxonomy to make the actual taxonomic assignments.
submitted by: Istvan Albert
scRNA-tools (www.scrna-tools.org)
The scRNA-tools database records details of software tools designed for analysing scRNA-seq data. Each tool is categorised according to the analysis tasks it can be used for.
submitted by: Istvan Albert
GitHub - epi2me-labs/wf-human-sv: Structural variation workflow (and benchmarking) using lra and cuteSV (github.com)
This workflow provides an easy way to call structural variants in human genomic data
submitted by: Istvan Albert
GitHub - Illumina/Nirvana: The nimble & robust variant annotator (github.com)
"The nimble & robust variant annotator" from Illumina
submitted by: Istvan Albert
Has anyone looked into the "all human genomes are 99.9% same" claim recently? The HPRC assemblies finally provide the data to make a good estimate but quantifying "same" is non-trivial. It's obviously less than 99.9% but how much less?
— Mikko Rautiainen (@MikkoRautiaine3) July 25, 2022
Has anyone looked into the "all human genomes are 99.9% same" claim recently? The HPRC assemblies finally provide the data to make a good estimate but quantifying "same" is non-trivial. It's obviously less than 99.9% but how much less?
— Mikko Rautiainen (@MikkoRautiaine3) July 25, 2022submitted by: Istvan Albert
(1) The cloud is really designed to suck finances from customers. Very poor cost management tooling especially for academic labs who live on tight budgets. I used to be quite bullish about cloud. Learned my lesson the hard way. 9/
— Anshul Kundaje (Glory to 🇺🇦) (@anshulkundaje) July 25, 2022
(1) The cloud is really designed to suck finances from customers. Very poor cost management tooling especially for academic labs who live on tight budgets. I used to be quite bullish about cloud. Learned my lesson the hard way. 9/
— Anshul Kundaje (Glory to 🇺🇦) (@anshulkundaje) July 25, 2022submitted by: Istvan Albert
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