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francescopatane96 / RNA-seq_Pipeline

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Deposited R scripts allow to execute a complete RNA-seq Pipeline, starting from sequence reads (FASTQ files) to mapping/annotate the genome using a reference, to counts the number of reads for every gene. when raw counts are obtained, DESeq2 module permits to find differentially expressed genes (DEG) and to perform statistical analysis. The last…

bam-files rna-seq r script deseq2 rna-seq-analysis kegg wikipathways reactome ora geneontology gsea rna-seq-pipeline reactome-pathway differentially-expressed-genes clusterprofiler deseq2-analysis gene-set-enrichment-analysis diseaseontology over-rapresentation-analysis
  • Updated Apr 14, 2023
  • Jupyter Notebook

MuhammadMuneeb007 / PhenotypeToGeneDownloaderR

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A comprehensive bioinformatics pipeline for downloading and analyzing genes associated with specific phenotypes from multiple biological databases. This package provides both R scripts for gene retrieval and Python analysis tools for downstream analysis.

bioinformatics r genomics computational-biology gtex phenotypes uniprot opentargets kegg reactome disgenet disease-gene-association hpo omim gene-prioritization literature-mining string-db phenotype-to-gene
  • Updated Apr 28, 2026
  • Python

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