github.com/broadinstitute/gtex-pipeline/star_gtexv8
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2025
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| _version_ | 1866902121047130112 |
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| author | Francois Aguet |
| author_facet | Francois Aguet |
| contents | # Analysis pipelines for the [GTEx Consortium](https://www.gtexportal.org) and [TOPMed](https://www.nhlbi.nih.gov/science/trans-omics-precision-medicine-topmed-program) This repository contains analysis pipelines for: * RNA-seq alignment, quantification, and quality control * eQTL mapping and annotation * Allele-specific expression quantification * Generation of the collapsed annotation used for gene-level expression quantification Pipeline components are available as docker images, and execution scripts are provided in [WDL](https://github.com/broadinstitute/wdl). The pipelines are available on [FireCloud](http://firecloud.org), in the namespace *broadinstitute_gtex*. All Python scripts are written in Python 3. A detailed description of the RNA-seq pipeline settings used for TOPMed is provided in [TOPMed_RNAseq_pipeline.md](https://github.com/broadinstitute/gtex-pipeline/blob/master/TOPMed_RNAseq_pipeline.md). |
| format | Recurso digital |
| id | zenodo_https___doi_org_10_5281_zenodo_15116291 |
| institution | Zenodo |
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| publishDate | 2025 |
| publisher | Zenodo |
| record_format | zenodo |
| spellingShingle | github.com/broadinstitute/gtex-pipeline/star_gtexv8 Francois Aguet # Analysis pipelines for the [GTEx Consortium](https://www.gtexportal.org) and [TOPMed](https://www.nhlbi.nih.gov/science/trans-omics-precision-medicine-topmed-program) This repository contains analysis pipelines for: * RNA-seq alignment, quantification, and quality control * eQTL mapping and annotation * Allele-specific expression quantification * Generation of the collapsed annotation used for gene-level expression quantification Pipeline components are available as docker images, and execution scripts are provided in [WDL](https://github.com/broadinstitute/wdl). The pipelines are available on [FireCloud](http://firecloud.org), in the namespace *broadinstitute_gtex*. All Python scripts are written in Python 3. A detailed description of the RNA-seq pipeline settings used for TOPMed is provided in [TOPMed_RNAseq_pipeline.md](https://github.com/broadinstitute/gtex-pipeline/blob/master/TOPMed_RNAseq_pipeline.md). |
| title | github.com/broadinstitute/gtex-pipeline/star_gtexv8 |
| url | https://doi.org/10.5281/zenodo.15116291 |