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1. MyScriptsMyScriptsPublic

   Contains all scripts I'm commonly using. Some scripts are under development. Mainly used for backups.

   Shell

2. metagenomics-vs-totalRNASeqmetagenomics-vs-totalRNASeqPublic

   Compares metagenomics and total RNA-Seq data-processing pieplines for microbial identification. Includes scripts to run pipelines on HPC clusters or locally, as well as scripts for statistical anal…

   Python 2 1

3. apscale_wrapperapscale_wrapperPublic

   A wrapper for the metabarcoding pipeline APSCALE to automatize the generation of apscale projects, quality control graphs, post-processing, and taxonomic annotation.

   Python

4. mitogenome_assembly_evaluationmitogenome_assembly_evaluationPublic

   Comparing and evaluating mitogenome assemblers

   Shell

5. exstream-metagenomics-totalrnaseq-mlexstream-metagenomics-totalrnaseq-mlPublic

   Scripts for data-processing and machine learning-based analysis of metagenomics and total RNA-Seq data from the ExStream project

   Python

6. apscaleapscalePublic

   Forked from DominikBuchner/apscale

   Advanced Pipeline for Simple yet Comprehensive AnaLysEs of DNA metabarcoding data

   Python