fungi
There are 88 repositories under fungi topic.
MushroomObserver/mushroom-observer
A website for sharing observations of mushrooms.
traitecoevo/fungaltraits
A dynamic database of fungal trait measurements
nextgenusfs/amptk
AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
steineggerlab/ufcg
UFCG: Universal Fungal Core Genes
guyleonard/get_jgi_genomes
A quick and easy way to download the genomes/predicted proteins of taxa available in JGI's Genome Portal.
JTFouquier/ghost-tree
creating hybrid-gene phylogenetic trees for diversity analyses
JanaSperschneider/EffectorP-3.0
Prediction of apoplastic and cytoplasmic effectors in fungi and oomycetes
DEMENT-Model/DEMENTpy
A spatially explicit trait- and individual-based microbial systems modelling framework
domingoclub/fermenter-software
Domingo Fermenter software source code
Otoliths/SP2000
🐟Catalogue of Life toolkit for R
cparsania/FungiExpresZ
An R-shiny package to analyse and visualise fungal gene expression data
obophenotype/fungal-anatomy-ontology
A structured controlled vocabulary for the anatomy of fungi
eslam-nasser/eslam-nasser.github.io
Interactive 3D fungi models built with Three.js
Rowena-h/FusariumLifestyles
Scripts for Hill et al. (2022) doi:10.1093/molbev/msac085 🟣
Changwanseo/FunVIP
Fungal Identification Pipeline
Changwanseo/GenMine
GenBank Record downloader for taxonomists
EverymanBio/pestalotiopsis
Assembly and phylogentic analysis pipeline for draft genome of a Pestalotiopsis fungi.
JanaSperschneider/EffectorP-2.0
Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0
akshayparopkari/RNAseq
Preprocessing and differential expression analysis for QuantSeq 3' mRNA-seq data
biocorecrg/microbiome_procedures
Mothur procedures for 16S and ITS analysis
ccdmb/catastrophy
CATAStrophy predicts filamentous plant pathogen lifestyle characteristics based on their CAZyme composition.
domingoclub/domingo-fermenter
A device to promote plant-based protein and open-source tools so that everyone can make them at home for the benefit of our lives and our planet
mchiapello/Ramf
A package for arbuscular mycorrhyzal fungi colonization
Rowena-h/FungusNameCheck
A script to check fungus names for the most up to date nomenclature according to Species Fungorum 🍄
vmikk/NextITS
A pipeline for metabarcoding fungi and other eukaryotes with full-length ITS sequenced with PacBio
Gardner-BinfLab/Razor
Tool to predict eukaryotic signal peptides. In addition, prediction of toxin and fungi signal peptides is also done.
amsesk/SCGid
SCGid, a consensus approach to contig filtering and genome prediction from single-cell sequencing libraries
MarufHasan24/jsr
pre release of fungi language. Its a jsr version and documentation for fungi.
Rowena-h/GaeumannomycesGenomics
Scripts for Hill et al. (in review) 🌾
Godrigos/mediadb
A small android application project listing commonly used microbiology culture media.
onco-p53/manuscripts
Code and data for my scientific publications
snewhouse/exotic-dna-ngs
WIP & POC: Count Viral and other non-human genome signatures in Human NGS data
tylerhuyser/CanYouEatItFungusIdentificationApp
CAN YOU EAT IT is a web application that allows users to identify fungi by location & season.
fantin-mesny/amapec
Antimicrobial activity prediction for fungal effector candidates
SergioAlias/sporeflow
🦠 SporeFlow: Fungal ITS metataxonomics pipeline
TraxlerLab/RNAseq_2021Pyonema
Code associated with Fischer, et al (2021) "Pyrolyzed Substrates Induce Aromatic Compound Metabolism in the Post-fire Fungus, Pyronema domesticum"