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Austin H. Patton
Austin Patton
SC
+2
Published: Mar 07, 2023
A workflow orchestration framework can streamline repeatable tasks and make workflows broadly usable. From several options, we chose Nextflow due to the ease of deploying across platforms, vibrant nf-core community, and ability to manage and monitor workflows with Nextflow Tower.
Connections
Supplements (1): Nextflow template v1.1.0 - GitHub
PA
RY
Published: Jun 15, 2023
Even with many tools available, categorizing species is tough. We used data from Raman spectroscopy, a form of label-free imaging, to infer phylogenetic patterns among several dozen diverse microbial taxa, offering a non-destructive and rapid way to dissect species relationships.
Connections
Supplements (1): Code v1.0 - GitHub
PA
KP
+2
Published: Sep 29, 2023
We investigated protein structure predictions as an alternative to protein sequence homology for comparing single-cell RNA-seq data across species.
Connections
Supplements (2): Code v0.0.1 - GitHub • Related data - Zenodo
RD
+4
Published: Jul 20, 2023
Horizontal gene transfer (HGT) is the exchange of DNA between species. It can lead to the acquisition of new gene functions, so finding HGT events can reveal genome novelty. preHGT is a pipeline that uses multiple existing methods to quickly screen for transferred genes.
Connections
Supplements (1): Code v1.0.0 - GitHub
SC
+4
Published: Sep 29, 2023
We want to find and use evolutionary innovations to solve present-day problems. We developed NovelTree, an efficient phylogenomic workflow that will empower us to decode the evolutionary traces of these innovations across the tree of life.
DM
DM
TR
+1
Published: Sep 27, 2023
Genetic models of complex traits often rely on incorrect assumptions that drivers of trait variation are additive and independent. An information theoretic framework for analyzing trait variation can better capture phenomena like allelic dominance and gene-gene interaction.
PA
BB
+3
Published: Oct 06, 2023
Only some bacteria accumulate substantial amounts of polyphosphate (polyP). We thought that despite sequence divergence, polyP synthesis enzymes in these bacteria might have similar structures. We found this is sometimes true but doesn’t fully explain the phenomenon.
Connections
Supplements (2): Data - Zenodo • Code - GitHub
