A guide to machine learning for biologists
Because of the increasing size and inherent complexity of biological data, there has been an increase in the application of machine learning in biology to create useful and...921 days ago
GEnView: A phylogeny based comparative genomics software to analyze the genetic environment of genes
A phylogeny based comparative genomics software to analyze the genetic environment of genes. The user can select one or several taxa and provide one or several reference pr...921 days ago
oGNM:Conformational dynamics based on contact topology in a coarse-grained presentation
Gaussian Network Model (GNM) is a powerful tool to sample conformational dynamics based on contact topology in a coarse-grained presentation. Here we present a method to co...901 days ago
GenomeTools: The versatile open source genome analysis software
The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a singl...885 days ago
855 days ago
Tiara: deep learning-based classification system for eukaryotic sequences
With a large number of metagenomic datasets becoming available, eukaryotic metagenomics emerged as a new challenge. The proper classification of eukaryotic nuclear and organellar genomes is an essential step toward a better understanding of eukaryotic diversity.845 days ago
Ten quick tips for deep learning in biology
By taking a comprehensive and careful approach to deep learning based on critical thinking about research questions, planning to maintain rigor, and discerning how work mig...834 days ago
Merfin: improved variant filtering, assembly evaluation and polishing via k-mer validation
Merfin, a k-mer based variant-filtering algorithm for improved accuracy in genotyping and genome assembly polishing. Merfin evaluates each variant based on the expecte...825 days ago
PuffAligner: a fast, efficient and accurate aligner based on the Pufferfish index
PuffAligner, a fast, accurate and versatile aligner built on top of the Pufferfish index. PuffAligner is able to produce highly sensitive alignments, similar to those of Bo...807 days ago
CrowdGO: Machine learning and semantic similarity guided consensus Gene Ontology annotation
CrowdGO is a protein Gene Ontology predictor using a meta approach, analyzing the predictions of other tools in order to get an improved precision and recall. Please note...772 days ago