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1. protal protal Public

   Protal is tool for taxonomic profiling from whole-genome shotgun sequencing data. With GTDB marker genes as reference, protal is able to cover most described bacteria. Protal is further able to dis…

   C 3

2. extract_gtdb_mg extract_gtdb_mg Public

   Minimal script to extract the GTDB marker genes (Tigrfam/Pfam) from a set of genomes or genes. Also outputs nucleotide marker genes (unlike GTDB-tk). Also does not require the database unlike GTDB-tk.

   Python 2

3. benchpro benchpro Public

   benchpro is an alternative to opal also accepting GTDB style taxonomy

   R 2

4. varkit varkit Public

   Variant k-mer identification and tracking toolkit

   C++ 1

5. simba simba Public

   Simulate microbiomes for benchmarking

   Python 1

6. AdvancedJava AdvancedJava Public

   Source code for the lecture Advanced Java

   Java