clinker is a pipeline for easily generating publication-quality gene cluster comparison figures. Given a set of GenBank files, clinker will automatically extract protein translations, perform global ...

parasail is a SIMD C (C99) library containing implementations of the Smith-Waterman (local), Needleman-Wunsch (global), and various semi-global pairwise sequence alignment algorithms. Here, ...

Creative Commons (CC): This is a Creative Commons license. Attribution (BY): Credit must be given to the creator. Non-Commercial (NC): Only non-commercial uses of the work are permitted. High-entropy ...

Advances in high-throughput sequencing technology have led to a rapid increase in the number of sequenced mitochondrial genomes (mitogenomes), ensuring the emergence of mitochondrial phylogenomics, as ...

Protein language models (pLMs) have exhibited remarkable capabilities in protein structure prediction and design. However, the extent to which they comprehend the intrinsic biophysics of protein ...

Understanding protein sequences and how they relate to the functions of proteins is extremely important. One of the most basic operations in bioinformatics is sequence alignment and usually the first ...

Scientists have developed hundreds of techniques to measure the interactions between pairs of processes in complex systems, but these computational methods—from contemporaneous correlation ...

An oligonucleotide of 115 nucleotides containing 72 nucleotides of tRNA flanked by 21 and 22 nucleotides of the yeast endogenous promoter and terminator was synthesized by IBA Lifesciences. At ten of ...

Humans can rapidly discriminate among many highly similar facial identities across identity-preserving image transformations (e.g., changes in facial expression), an ability that requires the system ...