eukaryotes

There are 23 repositories under eukaryotes topic.

  • soedinglab/metaeuk

    MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics

    Language:C17598923

  • pr2database/pr2database

    Protist Ribosomal Reference database (PR2) - SSU rRNA gene database

    Language:R7812447

  • ibe-uw/tiara

    tiara – a tool for DNA sequence classification

    Language:Python53687

  • EngqvistLab/Tome

    A machine learning model for the prediction of optimal growth temperature of microorganisms and enzyme catalytic optima

    Language:Python523615

  • nf-core/metatdenovo

    Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.

    Language:Nextflow2214510210

  • chmccarthy/Pangloss

    Pangenome analysis of eukaryotes.

    Language:Perl182124

  • RogerLab/Eukfinder

    Eukfinder: A pipeline to retrieve microbial eukaryote genomes from metagenomic sequencing data

    Language:Python14181

  • galikbence/genome_annotation

    Pipeline for eukaryotic genome annotation based on external evidences

    Language:R8201

  • pr2database/pr2-primers

    Scripts for paper Vaulot et al. 2022

    Language:R52101

  • vmikk/NextITS

    A pipeline for metabarcoding fungi and other eukaryotes with full-length ITS sequenced with PacBio

    Language:Nextflow5250

  • LucaPizzagalli/motion-microswimmers-simulation

    Simulation of the motion of the eukariotic cell Chlamydomonas Reinhardtii

    Language:C++4100

  • wrf/genome-size

    examination of genome size across all kingdoms

    Language:R4301

  • amsesk/SCGid

    SCGid, a consensus approach to contig filtering and genome prediction from single-cell sequencing libraries

    Language:Python3343

  • EngqvistLab/orgtools

    A library to get information on organisms and UniProt identifiers. This includes growth temperature, growth ph, pfam domains, taxonomic lineage.

    Language:Python2300

  • sabahzero/Puerto-Nuevo_Coastal-Microbial-Ecology_16S-18S-Workflow_UlHasan-etal

    This is a microbial amplicon sequence (16S and 18S iTag) data and analyses pipeline corresponding to the manuscript, "Community ecology across bacteria, archaea and microbial eukaryotes in the sediment and seawater of coastal Puerto Nuevo, Baja California" for public benefit and usage.

    2201

  • Tree-of-Sex/ToS-Ontology

    The Tree of Sex Ontology (TOSO) covers any trait related to reproduction included in the Tree of Sex database

    Language:Makefile22820

  • balazshorvathreal/MegaVir

    MegaVir is a bioinformatic pipeline for virome characterization and genome assembly.

    Language:R1100

  • jcvi-plant-genomics/eucap

    EuCAP, a Eukaryotic Community Annotation Package (adapted from the implementation developed for the Rice Genome Annotation Project)

    Language:Perl1200

  • ToshkaDev/Motif

    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.

    Language:Python1102

  • andrewd789/DNA_extraction_PCR_impacts

    Sequence processing and analysis code used to investigate the effects of different DNA extraction methods and PCR variability on multi-taxon DNA meta-barcoding estimates of soil biodiversity.

    Language:R0000

  • cmlglvz/datasets

    Datasets and statistics code used for "Objective 1" for PhD Thesis

    Language:HTML0100

  • Next-ITS/next-its.github.io

    NextITS pipeline documentation

    0100

  • SpanishCat/Synyin-Deed

    A program that uses the Synteny Index algorithm to compare between Eukaryotes.

    Language:Perl0100