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    21 repositories

    • miRNA

      Public
      miRNA analysis pipeline
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 28, 2024Nov 28, 2024

    • solida-view

      Public
      Dockerized version of Panoptes, a powerful tool for monitoring the execution of Snakemake workflows.
      Makefile
      •
      MIT License
      •0•0•0•0•Updated Nov 27, 2024Nov 27, 2024

    • astra

      Public
      Snakemake pipeline to performs Variant Calling (with DeepVariant) and Variant Annotation (with VEP) starting from tumor BAM files.
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 21, 2024Nov 21, 2024

    • dima

      Public
      Snakemake pipeline to map DNA datasets to a given reference genome using BWA MEM and Samtools.
      bioinformaticssnakemakegenomicsworkflowssnakemake-workflowsngs-pipeline
      Python
      •
      GNU General Public License v3.0
      •2•1•2•0•Updated Nov 21, 2024Nov 21, 2024

    • musta

      Public
      MUSTA: a modular pipeline to detect, classify and interpret mutations in cancer
      Python
      •
      MIT License
      •0•0•1•0•Updated Jul 5, 2024Jul 5, 2024

    • solida

      Public
      SOLIDA is command-line solution that facilitate the reproducibility and portability of NGS pipelines. It can easily organize the deployment, the data management and the execution of a Snakemake based workflow.
      pythonansiblengsyamlworkflowsnakemakepipelinereproducibilityngs-pipeline
      Python
      •
      GNU General Public License v3.0
      •1•6•2•1•Updated Mar 26, 2024Mar 26, 2024

    • ride

      Public
      bioinformaticssnakemakegenomicsrna-seq-analysis
      Python
      •
      GNU General Public License v3.0
      •3•0•0•0•Updated Mar 26, 2024Mar 26, 2024

    • .github

      Public
      0•0•0•0•Updated Jan 19, 2023Jan 19, 2023

    • toolkit

      Public
      DNA Reference Creator: this pipeline is aimed at downloading and building indexes and accessory files for reference genomes
      pythonbioinformatics
      Python
      •
      GNU General Public License v3.0
      •0•0•1•0•Updated Oct 21, 2022Oct 21, 2022

    • dica

      Public
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 20, 2022Jul 20, 2022

    • diva

      Public
      DiVA (DNA Variant Analysis) is a pipeline for Next-Generation Sequencing Exome data anlysis
      workflowbioinformaticssnakemakegenomicsvariant-callingvariant-annotations
      Python
      •
      GNU General Public License v3.0
      •6•0•2•1•Updated Jul 14, 2022Jul 14, 2022

    • test-data-somatic

      Public
      Shell
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jun 16, 2022Jun 16, 2022

    • qcrs4

      Public
      A pipeline for QC
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 4, 2022Mar 4, 2022

    • solida-core

      Public
      0•0•0•0•Updated Mar 1, 2022Mar 1, 2022

    • niasmic

      Public
      Non Invasive Analysis of Somatic Mutations in Cancer
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jun 18, 2021Jun 18, 2021

    • diva.wgs

      Public
      Python
      •
      GNU General Public License v3.0
      •3•0•1•0•Updated Jan 29, 2021Jan 29, 2021

    • solida-gui

      Public
      Container Docker application that facilitate the solida usage, via a friendly GUI
      HTML
      •
      MIT License
      •1•0•0•0•Updated Jan 28, 2021Jan 28, 2021

    • test-data-RNA

      Public
      GNU General Public License v3.0
      •0•0•0•0•Updated Dec 11, 2020Dec 11, 2020

    • test-data-DNA

      Public
      A repository with test data for DNA analysis pipelines
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 26, 2020Nov 26, 2020

    • sride

      Public
      Snakemake enabled pipeline for smallRNA-Seq identification
      Python
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Jan 20, 2020Jan 20, 2020

    • docs

      Public
      solida-core documentation:
      documentation
      HTML
      •1•0•0•1•Updated Jun 18, 2019Jun 18, 2019