Pinned Repositories
animal_gut_16S-uni
codiversification
Code and notes for the Ley Lab's codiversification paper.
DeepMAsED
Deep learning for Metagenome Assembly Error Detection
endoR
Code and manual of the endoR R-package (Ruaud et al, in preparation).
pyTecanFluent
Python interface to TECAN Fluent liquid handling robot
resmico
Identifying misassemblies via deep learning
Struo
Ley Lab MetaGenome Profiler DataBase generator
Struo2
Scalable creating/updating of metagenome profiling databases
SynTracker
SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same species) using genome synteny.
TwinsUK_virome
Jupyter notebooks and scripts describing the data analysis process in the TwinsUK_virome project
Department of Microbiome Science at the MPI for Biology 's Repositories
leylabmpi/Struo2
Scalable creating/updating of metagenome profiling databases
leylabmpi/Struo
Ley Lab MetaGenome Profiler DataBase generator
leylabmpi/SynTracker
SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same species) using genome synteny.
leylabmpi/pyTecanFluent
Python interface to TECAN Fluent liquid handling robot
leylabmpi/endoR
Code and manual of the endoR R-package (Ruaud et al, in preparation).
leylabmpi/resmico
Identifying misassemblies via deep learning
leylabmpi/codiversification
Code and notes for the Ley Lab's codiversification paper.
leylabmpi/qiime_2_ll_quick_viewer
leylabmpi/pyTecanFluentShiny
Shiny front end for Python interface to TECAN Fluent liquid handling robot
leylabmpi/CoreGenomePrimers
Design clade-specific primers targeting a pan-genome core gene
leylabmpi/global_metagenome_diversity
Global human gut metagenome diversity study: code and notes
leylabmpi/LeyLabRMisc
R package of Ley Lab misc functions, rmd templates, etc.
leylabmpi/ll_pipeline_utils
Utility scripts for running Ley Lab pipelines
leylabmpi/RTecanFluentShiny
R interface to TECAN Fluent liquid handling robot
leylabmpi/traitar3
leylabmpi/ll_computer
Ley Lab server admin tools
leylabmpi/16S-arc_vertebrate_paper
Notes/code associated with the 16S-archaea Vertebrate Gut Microbiome manuscript
leylabmpi/alphafold_sm
leylabmpi/Col_OB_CHS
Code for analysis of metagenomes of Colombian adults in OB and CHS
leylabmpi/gtdb_to_taxdump
leylabmpi/MGSIM
leylabmpi/MicrobeMeter
leylabmpi/plateReaderShiny
Shiny apps for interfacing with the lab plate readers
leylabmpi/pseudomonas_maize_genome
leylabmpi/Schoen_Christensenella_2023
leylabmpi/sgepy
leylabmpi/silent_flagellins
Code associated to the silent recognition of flagellins by Toll-like receptor 5 paper
leylabmpi/Synteny_analyses
leylabmpi/SynTracker_old
leylabmpi/TUK_db_shiny
Shiny db viewer for TUK data