Eukfinder: A pipeline to retrieve microbial eukaryote genomes from metagenomic sequencing data
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Updated
Sep 4, 2024 - Python
Eukfinder: A pipeline to retrieve microbial eukaryote genomes from metagenomic sequencing data
Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.
A pipeline for metabarcoding fungi and other eukaryotes with full-length ITS sequenced with PacBio
MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
The Tree of Sex Ontology (TOSO) covers any trait related to reproduction included in the Tree of Sex database
A library to get information on organisms and UniProt identifiers. This includes growth temperature, growth ph, pfam domains, taxonomic lineage.
SCGid, a consensus approach to contig filtering and genome prediction from single-cell sequencing libraries
tiara – a tool for DNA sequence classification
MegaVir is a bioinformatic pipeline for virome characterization and genome assembly.
examination of genome size across all kingdoms
NextITS pipeline documentation
V. M. Gumerov, E. P. Andrianova, M. A. Matilla, Karen M. Page, Elizabet Monteagudo-Cascales, A. C. Dolphin, T. Krell, I. B. Zhulin (2022). Amino acid sensor conserved from bacteria to humans.
Protist Ribosomal Reference database (PR2) - SSU rRNA gene database
Pipeline for eukaryotic genome annotation based on external evidences
A program that uses the Synteny Index algorithm to compare between Eukaryotes.
Datasets and statistics code used for "Objective 1" for PhD Thesis
Scripts for paper Vaulot et al. 2022
Simulation of the motion of the eukariotic cell Chlamydomonas Reinhardtii
A machine learning model for the prediction of optimal growth temperature of microorganisms and enzyme catalytic optima
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