EnvGen / toolboxLinks
Various scripts used at the EnvGen group, directed towards metagenomic analysis.
☆14Updated 5 years ago
Alternatives and similar repositories for toolbox
Users that are interested in toolbox are comparing it to the libraries listed below
Sorting:
- Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files☆21Updated 2 years ago
- Population Genomics in R workshop☆12Updated last year
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- Pipeline for eukaryotic genome annotation based on external evidences☆13Updated 2 years ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Updated 5 years ago
- Tools for extracting individual genomes from metagenomes☆17Updated last year
- A pipeline for whole genome assembly☆16Updated 3 years ago
- scripts for sequence and feature conversion, annotation, analysis ...☆28Updated 4 months ago
- MAG Circularization Method☆33Updated 3 years ago
- Guide through code for a Minimmap2 genome alignment and a seq-seq-pan pan-genome alignment with visualizations in R. The tutorial present…☆18Updated 2 months ago
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆22Updated 2 years ago
- Some useful python scripts for biologists☆32Updated 8 months ago
- ☆26Updated 4 years ago
- some useful scripts for working with genomics and sequencing data☆18Updated 5 years ago
- Horizontal Gene Transfer Detection by Mapping Sequencing Reads☆22Updated 7 years ago
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆47Updated last week
- visualization of phylogenetic output files☆13Updated last year
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- The Prokaryotic Genomics and Comparative Genomics Analysis Pipeline☆39Updated 2 years ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago
- PhyloBayes: phylogenetic reconstruction using infinite mixtures (CAT and CAT-GTR) -- serial version (for MPI, see pbmpi.git)☆15Updated 3 years ago
- Plot microbiome time series in parallel☆26Updated last year
- The Vertebrate Genomes Project Mitogenome Assembly Pipeline☆19Updated 2 years ago
- A quick workflow to get researchers started with the bioinformatic pipeline used in the Environmental Metagenomics program.☆12Updated 5 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆41Updated 5 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆32Updated 3 weeks ago
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Updated last year
- ☆15Updated last year
- An R package to identify and classify duplicated genes from whole-genome protein sequence data☆27Updated last week