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gtdb_to_taxdump
Convert GTDB taxonomy to NCBI taxdump formattraitar3
From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)MGSIM
Metagenome read simulation of multiple synthetic communitiesMFEprimer_linux
A fast thermodynamics-based program for checking PCR primer specificity (setup.py: linux install)CLdb
Create a local pan-genome CRISPR databasepushmsg
IPython magic function to send notifications with PushbulletTax4Fun
unofficial Tax4Fun repopop_genome
Population genomics scripts - many build upon ITEPtree_edit
tools for manipulating phylogeniessgepy
SGE job submission & monitoringmisc_perl
miscellaneous perl scripts that haven't yet been migrate to another repogtl_read_filter_pipeline
Illumina read filtering pipeline for the GTL projectseq_tools
Miscellaneous tools for working with sequencesHTSSIP
An R package for analyzing high throughput sequence stable isotope probing dataFORAGer
Finding Orthologous Reads and Genesmetagenome_assembly
Various scripts for metagenome assemblysnakemakeNB
Create snakemake rules to run Jupyter/Ipython NotebooksconsenTRAIT
Phylogenetic conservatism of functional traits in microorganismsSIPSim
A toolset for simulating high resolution stable isotope probing dataLove Open Source and this site? Check out how you can help us