Combining Compositional Data Sets Introduces Error in Covariance Network Reconstruction

no code implementations • 7 Nov 2023 • James D. Brunner, Aaron J. Robinson, Patrick S. G. Chain

However, these statistical associations across kingdoms are more difficult to infer than intra-kingdom associations due to the nature of the data involved using standard network inference techniques.

EDGE COVID-19: A Web Platform to generate submission-ready genomes for SARS-CoV-2 sequencing efforts

1 code implementation • 15 Jun 2020 • Chien-Chi Lo, Migun Shakya, Karen Davenport, Mark Flynn, Adán Myers y Gutiérrez, Bin Hu, Po-E Li, Elais Player Jackson, Yan Xu, Patrick S. G. Chain

Using an intuitive web-based interface, this workflow automates SARS-CoV-2 reference-based genome assembly, variant calling, lineage determination, and provides the ability to submit the consensus sequence and necessary metadata to GenBank or GISAID.

Decision Making

A Public Website for the Automated Assessment and Validation of SARS-CoV-2 Diagnostic PCR Assays

no code implementations • 8 Jun 2020 • Po-E Li, Adán Myers y Gutiérrez, Karen Davenport, Mark Flynn, Bin Hu, Chien-Chi Lo, Elais Player Jackson, Migun Shakya, Yan Xu, Jason Gans, Patrick S. G. Chain

Summary: Polymerase chain reaction-based assays are the current gold standard for detecting and diagnosing SARS-CoV-2.