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  1. PhyloSuite PhyloSuite Public

    Suite of tools that provide a unified framework of analyzing, manipulating and visualizing phylogenetic data.

    R 1

  2. SandFlyComparativeGenomics SandFlyComparativeGenomics Public

    Source code for the manuscript of Charamis et al. (2024)

    R 2

  3. CWL-workflow-for-single-cell-RNAseq-analysis CWL-workflow-for-single-cell-RNAseq-analysis Public

    CWL workflow for single-cell RNAseq data analysis using CellRanger or STARsolo. Performs initial steps from read trimming to generating the count matrix, as well as QC, normalization, feature selec…

    Common Workflow Language 1

  4. ARuS ARuS Public

    Snakemake pipeline for running automated RNAseq analysis, from fastq reads to Differential Expression (DE) analysis. The latest version includes rules for post-DE annotation of genes, including ann…

    Perl 1

  5. GFF3lib GFF3lib Public

    Library for efficiently parsing and manipulating gff3 files.

    Python

  6. UpSetPlot UpSetPlot Public

    Python