Julien A Nguinkal's repositories
AGAT
Another Gtf/Gff Analysis Toolkit
ariba
Antimicrobial Resistance Identification By Assembly
augustus
AUGUSTUS v3.2.1 for installation on Mac OS X
bio-playground
miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.
bioconda-recipes
Conda recipes for the bioconda channel.
fetch_NCBIAssemblies
Accessing NCBI’s Entrez databases using EDirect utility
genomeGTFtools
convert various features into a GFF-like file for use in genome browsers
Liftoff
An accurate GFF3/GTF lift over pipeline
MicroRNA_analysis
Analysis of pikeperch miRNA-Seq data
ngs_containers
set of singularity containers for NGS pipelines
nullarbor
:floppy_disk: :page_with_curl: "Reads to report" for public health and clinical microbiology
pb-assembly
PacBio Assembly Tool Suite: Reads in ⇨ Assembly out
Pikeperch_transcriptomics
Multi-tissue transcriptome assembly of pikeperch, tissue expression atlas, co-expression and positive selction analyses
radar
An interactive tool for rapid analysis of diagnostic and antimicrobial pattern in R using Shiny
reper
reper - Genome-wide identification, classification and quantification of repetitive elements without an assembled genome
Run_Genscan
These scripts are used to run the Genscan program for gene annotation.
scvi-tools
Deep probabilistic analysis of single-cell omics data
SLUC_assembly
Scripts and resources for pikeperch (S. lucioperca) genome project
tormes
Making whole bacterial genome sequencing data analysis easy
vgp-assembly
VGP repository for the genome assembly working group