Herald:The Biostar Herald for Monday, April 11, 2022
0
2
Entering edit mode
11 weeks ago
Biostar 850

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 zx8754, Mensur Dlakic, Istvan Albert, and was edited by Istvan Albert,


GitHub - hsinnan75/GSAlign: GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison (github.com)

GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison

TLDR: produces pairwise alignments, with either MAF or VCF output pretty darn quick

Aligns 50 million bp genomes in about 40 seconds.

submitted by: Istvan Albert


Contrastive learning on protein embeddings enlightens midnight zone | bioRxiv (doi.org)

Detecting distant homology from protein language models.

submitted by: Mensur Dlakic


[2203.14309] DeepDPM: Deep Clustering With an Unknown Number of Clusters (arxiv.org)

https://github.com/BGU-CS-VIL/DeepDPM

submitted by: Mensur Dlakic


submitted by: Istvan Albert


GitHub - rrwick/Filtlong: quality filtering tool for long reads (github.com)

Filtlong is a tool for filtering long reads by quality. It can take a set of long reads and produce a smaller, better subset. It uses both read length (longer is better) and read identity (higher is better) when choosing which reads pass the filter.

submitted by: Istvan Albert


awesome-genome-visualization (cmdcolin.github.io)

awesome-genome-visualization A list of interesting genome visualizers, genome browsers, or genome-browser-like implementations https://github.com/cmdcolin/awesome-genome-visualization

submitted by: zx8754


De novo sequencing, diploid assembly, and annotation of the black carpenter ant, Camponotus pennsylvanicus, and its symbionts by one person for $1000, using nanopore sequencing. | bioRxiv (www.biorxiv.org)

De novo sequencing, diploid assembly, and annotation of the black carpenter ant, Camponotus pennsylvanicus, and its symbionts by one person for $1000, using nanopore sequencing.

submitted by: Istvan Albert


Prime-seq, efficient and powerful bulk RNA sequencing | Genome Biology | Full Text (genomebiology.biomedcentral.com)

Here, we optimize and validate prime-seq, an early barcoding bulk RNA-seq method. We show that it performs equivalently to TruSeq, a standard bulk RNA-seq method, but is fourfold more cost-efficient due to almost 50-fold cheaper library costs

submitted by: Istvan Albert


Want to get the Biostar Herald in your email? Who wouldn't? Sign up righ'ere: toggle subscription

herald • 163 views
ADD COMMENT

Login before adding your answer.

Traffic: 1416 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6