All Published Workflows
8 workflows that have been reviewed and published
mapping pipeline for ancient DNA
Mapache ([maˈpa.t͡ʃe]) is a lightweight mapping pipeline for ancient DNA using the workflow manager Snakemake . Visit ...
Score and compare multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s)
A snakemake-wrapper for evaluating de novo bacterial genome assemblies, e.g. from Oxford Nanopore (ONT) or Illumina seque...
Workflow for identifying and classifying homologous gene/protein sequences
A nalysis of MO lecular E volution with BA tch E ntry (AMOEBAE)
is a customizable bioinformatics workflow ...
Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)
BGCFlow is a systematic workflow for the analysis of biosynthetic gene clusters across large collections of genomes (p...
JSON
CleanEx dataset code
Clustering
Text mining report
bigslice
refseq_masher
antiSMASH
Biopython
cblaster
CheckM
Diamond
eggNOG-mapper v2
FastANI
metaprokka
MLST
Pandas
Peppy
Roary
seqfu
Snakemake
alive-progress
gtdbtk
matplotlib
ncbi-genome-download
networkx
numpy
plotly
PyYAML
requests
Comparative genomics
Setting Up lab training Snakemake for Variant Calling Workflow
Snakemake is more suitable for Linux or Mac Systems but it can be applied for Windows (https://snakemake.readthedocs.io/en...
Transcriptome Analysis Pipeline for Mangrove Crab Scylla serrata Heat Stress Response Study
This repository contains scripts to reproduce the results presented in Shrestha et al.: Comparative transcriptome profiling...
Large comparative genomic analysis tool for the prediction of lifestyle-associated genes
microLife is a streamlined computational workflow that annotates bacterial genomes and performs large-scale comparative genom...
Workflow of BioTranslator Comparative Analysis
This workflow is based on the idea of comparing different gene sets through their semantic interpretation. In many cases, the...