JeanMainguy
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From annotated genomes to metabolic screening in large scale microbiotas
Finding discrete mobile genetic elements through repeated assembly
Code to support my autonomous foosball playing robot
Artifact corresponding to the PanGraph-DB framework for performing complex multi-pangenome analyses using a graph database system.
Build a partitioned pangenome graph from microbial genomes
Query sequence database by HMMs arranged in predefined synteny structure
IntronSeeker identifies potentially retained introns in de novo RNA-seq assembly in order to quantify and remove them.
GitHub Achievement Badges : A curated listing all Achievements available on the GitHub profile
A matplotlib backend that produces plots using only ASCII characters
Reviews for the Journal of Open Source Software
AMR/VF LGT focused bacterial genomics analysis workflow
Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs
NetSyn is a tool to detect conserved genomic contexts (i.e. synteny conservation) among a list of protein targets.
A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.
Python module to manipulate and visualize minimap2's cs tag
A simple Snakemake profile for Slurm without --cluster-config
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
Conda recipes for the bioconda channel.
A Nextflow workflow for QC, evaluation, and profiling of metagenomic samples using short- and long-read technologies
Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
Rich is a Python library for rich text and beautiful formatting in the terminal.
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
Python3 wrapper for parallelized gene prediction using Prodigal