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@solida-core

solida-core

Robust, and ready-to-use collection of extensively validated bioinformatic pipelines
README.md

Hi there, this is the solida-core project official repository! 👋

We are Rossano and Matteo, bioinformaticians respectively at CRS4 and the University of Sassari.

During these years we have worked on the development of reproducibile workflows for NGS Data Analysis.

Our pipelines, based on public tools, follow GATK Best Practices and include steps that we found useful during the analysis of samples processed in our facility.

solida-core is a collection of open-source Snakemake-based pipelines. We are working to increase the number of our pipelines and, of course, to mantain up-to-date the old ones.

If you found one of our workflows useful for your project, please remember to cite us including https://github.com/solida-core to your references.

Thank you,

Rossano and Matteo

Pinned

  1. musta musta Public

    MUSTA: a modular pipeline to detect, classify and interpret mutations in cancer

    Python

  2. solida 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 bas…

    Python 4 1

  3. dima dima Public

    Snakemake pipeline to map DNA datasets to a given reference genome using BWA MEM and Samtools.

    Python 1 2

  4. diva diva Public

    DiVA (DNA Variant Analysis) is a pipeline for Next-Generation Sequencing Exome data anlysis

    Python 6

Repositories

Showing 10 of 19 repositories
  • musta Public

    MUSTA: a modular pipeline to detect, classify and interpret mutations in cancer

    Python 0 MIT 0 1 0 Updated Jun 6, 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.

    Python 4 GPL-3.0 1 2 1 Updated Mar 26, 2024
  • ride Public
    Python 0 GPL-3.0 3 0 0 Updated Mar 26, 2024
  • .github Public
    0 0 0 0 Updated Jan 19, 2023
  • toolkit Public

    DNA Reference Creator: this pipeline is aimed at downloading and building indexes and accessory files for reference genomes

    Python 0 GPL-3.0 0 1 0 Updated Oct 21, 2022
  • dica Public
    Python 0 GPL-3.0 0 0 0 Updated Jul 20, 2022
  • dima Public

    Snakemake pipeline to map DNA datasets to a given reference genome using BWA MEM and Samtools.

    Python 1 GPL-3.0 2 2 0 Updated Jul 15, 2022
  • diva Public

    DiVA (DNA Variant Analysis) is a pipeline for Next-Generation Sequencing Exome data anlysis

    Python 0 GPL-3.0 6 2 1 Updated Jul 14, 2022
  • test-data-somatic Public
    Shell 0 GPL-3.0 0 0 0 Updated Jun 16, 2022
  • qcrs4 Public

    A pipeline for QC

    Python 0 MIT 0 0 0 Updated Mar 4, 2022
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