UCHIME improves sensitivity and speed of chimera detection
Abstract Motivation: Chimeric DNA sequences often form during polymerase chain reaction amplification, especially when sequencing single regions (e.g. 16S rRNA or fungal Interna...
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1,214 publications
Minimap2: pairwise alignment for nucleotide sequences
Abstract Motivation Recent advances in sequencing technologies promise ultra-long reads of ∼100 kb in average, full-length mRNA or cDNA reads in high throughput and genomic cont...
Numerical optimization
This third edition of Braun and Murdoch's bestselling textbook now includes discussion of the use and design principles of the tidyverse packages in R, including expanded covera...
Integrated analysis of multimodal single-cell data
ezSingleCell is an interactive and easy-to-use application for the analysis of multiple single-cell and spatial omics data types for biologists. It combines the best-performing ...
How to Do Things With Words
Abstract This work sets out the author's conclusions in the field to which he directed his main efforts for at least the last ten years of his life. Starting from an examination...
IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era
Abstract IQ-TREE (http://www.iqtree.org, last accessed February 6, 2020) is a user-friendly and widely used software package for phylogenetic inference using maximum likelihood....
Reflecting on reflexive thematic analysis
Since initially writing on thematic analysis in 2006, the popularity of the method we outlined has exploded, the variety of TA approaches have expanded, and, not least, our thin...
Limited-dependent and qualitative variables in econometrics
This book presents the econometric analysis of single-equation and simultaneous-equation models in which the jointly dependent variables can be continuous, categorical, or trunc...