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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