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rnaseq-analysis

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grimmlab /BookChapter-RNA-Seq-Analyses

Best practice RNA-Seq analysis pipeline for reference-based RNA-Seq analysis

bioinformatics pipeline differential-expression rnaseq-analysis

UpdatedMay 17, 2021
Shell

dib-lab /elvers

(formerly eelpond) an automated RNA-Seq workflow system

bioinformatics transcriptomics rnaseq-analysis

UpdatedOct 14, 2020
Python

ShawnWx2019 /WGCNA-shinyApp

shiny app for WGCNA...

bioinformatics shiny-apps wgcna rnaseq-analysis

UpdatedDec 6, 2024
R

sunyumail93 /PipeRNAseq

A comprehensive pipeline for RNAseq data analysis

bioinformatics rna-seq gene-expression bioinformatics-pipeline rnaseq rna rna-sequencing rna-seq-analysis bioinformatics-analysis rnaseq-pipeline rnaseq-analysis transcriptome-analysis

UpdatedAug 31, 2024
Shell

Center-for-Health-Data-Science /bulkDGD

Code, documentation, and tutorials for the DGD model trained on bulk RNA-Seq data.

rna-seq neural-network rnaseq rna-seq-analysis deep-generative-model deep-generative-models rnaseq-analysis deep-generative-modelling

UpdatedAug 27, 2024
Python

INMEGEN /Pipelines_Inmegen

Flujos de trabajos desarrollados y automatizados en el Intituto Nacional de Medicina Genómica para el procesamiento de datos genómicos y transcriptómicos.

dockerfile bioinformatics somatic-variants variant-calling differential-expression genomic-data-analysis nextflow-pipeline rnaseq-analysis transcriptome-analysis

UpdatedMar 13, 2025
Nextflow

CGAT-Group /DICAST

Docker Integrated Comparison of Alternative Splicing (AS) Tools. Benchmarking AS tools and genomic alignment tools.

docker snakemake transcriptomics rnaseq-pipeline rnaseq-analysis

UpdatedJan 5, 2023
Python

10adavis /DESeq2_fGSEA_Flow

This repo is a template for running differential gene expression analysis of RNA-seq count data followed by gene set enrichment analysis. This workflow is run in R using Rmarkdown. It is based around the popular R packages, DESeq2, fGSEA, and others.

bioinformatics bioinformatics-pipeline rnaseq rna-sequencing bioinformatics-analysis rna-seq-pipeline rnaseq-analysis

UpdatedOct 16, 2023
R

3mmaRand /R4BABS

rstats data-analysis beginner intermediate bioscience rnaseq-analysis flowcytomatry-analysis

UpdatedMar 18, 2025
HTML

FINitenet /TRMRNAseqTools

The TRMRNASeqTools is a SHELL and Python based pipeline designed for automatic general analysis for TRM sRNA sequencing data in supported plants.

bioinformatics rna-seq mirna-mrna-interaction rnaseq-analysis srna-seq

UpdatedJan 7, 2025
Shell

royfrancis /seqhub

Guide and links related to bulk and single-cell RNA-Seq experiments.

rna-seq single-cell-rna-seq single-cell-omics rnaseq-analysis single-cell-transcriptomics

UpdatedNov 12, 2024
TeX

Alruta /Kallisto-DESeq2_Pipeline

A script to analyze with DESeq2 data from Kallisto. You maybe are interested only in DESeq2 part and its analisis and representation :)

rna-seq r rstudio deseq2 kallisto rnaseq-pipeline rnaseq-analysis deseq2-analysis

UpdatedJul 24, 2022

mariachiaragrieco /bulk-RNAseq

bulk-RNAseq analysis for Transcriptomics Course 2021 (MSc Bioinformatics for Computational Genomics)

tcga transcriptomics differential-expression bulk-rna-seq rnaseq-analysis

UpdatedApr 2, 2022
HTML

hugojal /snRNA_DMD_biomarker

This project was conducted for the Stanford BioHacks hackathon.

rstudio dmd geneexpression rnaseq-analysis duchennemusculardystrophy

UpdatedSep 24, 2024
R

hoomanhanaei /RNAseq_DataAanalysis

RNA Sequencing Data Analysis: A 2025 Review and Updated Snakemake Pipeline

snakemake-workflow rnaseq-analysis

UpdatedMar 3, 2025
Python

michalbukowski /rnaseq-pipeline-1

Simple Snakemake RNA-Seq pipeline

python rna-seq snakemake r pandas python3 bioconductor salmon miniconda dge miniconda3 dge-analysis salmon-deseq2 rnaseq-pipeline snakemake-pipeline rnaseq-analysis snakemake-rna-seq

UpdatedMar 21, 2023
Python

jvandinter /Cornel_et_al_2023

Code for Cornel et al., Submitted (2023)

rnaseq-analysis

UpdatedDec 21, 2023
R

sturkarslan /RNASeq-Analysis

Custom workflow for analysis of RNAseq data

rnaseq-analysis custom-workflow rnaseq-data

UpdatedMay 18, 2020
R

AwesomeTimeTraveler /IntegrativeMultiOM

IMOM - A pipeline for interacting with, processing, and analyzing multi-OM datasets in phylogenetic and evolutionary context

bioinformatics evolution methylation rnaseq phylogeny illumina-sequencing illumina-bead-chip rnaseq-analysis

UpdatedOct 23, 2023
R

kfarleigh /ResearchersGuideToPopulationGenomics

A book that discusses topics and contains tutorials relevant to population genomics

rnaseq population-genomics population-genetics rnaseq-pipeline rnaseq-analysis

UpdatedApr 16, 2024
HTML

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