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  1. AugusMake AugusMake Public

    The AugusMake pipeline is a Snakemake-based workflow for generating gene annotations using the Augustus software. AugusMake can perform gene predictions using any combination of the three methods: …

    Python 2

  2. singularity-recipes singularity-recipes Public

    Recipes for Singularity

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  3. astral-species-tree astral-species-tree Public

    This is a Snakemake workflow that calculates maximum-likelihood gene trees with IQ-TREE and 100 bootstrap replicates for each tree. Then, consensus trees are produced and combined to infer a specie…

    Python

  4. supermatrix-tree supermatrix-tree Public

    Snakemake workflow that concatenate MSA files into a supermatrix and calculates a maximum likelihood tree. Imported from my GitLab

    Python

  5. rna-seq-2x-de-novo-assembly rna-seq-2x-de-novo-assembly Public

    Snakemake workflow to de novo assemble transcriptomes with two software, Trinity and Shannon. Imported from my GitLab.

    Python

  6. VCFpytools VCFpytools Public

    Assortment of VCF processing scripts

    Python 1