bulk-rna-seq
There are 47 repositories under bulk-rna-seq topic.
Starlitnightly/omicverse
A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
digitalcytometry/ecotyper
EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
bcgsc/RNA-Bloom
:hibiscus: reference-free transcriptome assembly for short and long reads
nunofonseca/irap
integrated RNA-seq Analysis Pipeline
Danko-Lab/TED
a fully Bayesian approach to deconvolve tumor microenvironment
earmingol/cell2cell
User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
carpentries-incubator/workflows-nextflow
Workflow management with Nextflow and nf-core
carpentries-incubator/bioc-rnaseq
Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor
hms-dbmi/dseqr
single-cell and bulk RNA-seq analyses from counts → pathways → drug candidates.
futianfan/GenoCraft
GenoCraft: A Comprehensive, User-Friendly Web Platform for High-Throughput Omics Data Analysis and Visualization (https://arxiv.org/pdf/2312.14249)
IGS/gEAR
The gEAR Portal was created as a data archive and viewer for gene expression data including microarrays, bulk RNA-Seq, single-cell RNA-Seq and more.
nasqar/deseq2shiny
a web-based R shiny application that wraps DESeq2 R package
cemalley/scRNASeq-bulkRNASeq
single cell and bulk RNASeq analysis scripts
luuloi/AppliedBioinformatics2023
"Applied bioinformatics" is a course for Genetics Master Program at Genetics Department
dalmolingroup/bulkrna
Dalmolin Group's workflow for pre-processing, alignment and quantification of bulk RNA-seq data
NUPulmonary/2020_Grant
Code base for the Grant, Morales-Nebreda, and Markov et al., “Circuits between infected macrophages and T cells in SARS-CoV-2 pneumonia” Nature (2021) paper
euxhenh/Truffle
Trajectory Inference of clinical data via Multi-commodity Flow
ebi-gene-expression-group/selectBCM
An R tool to detect and correct batch-effects in gene-expression data (Microarray and bulk-RNAseq))
jalwillcox/Calculate-PSI
A script used to calculate percent spliced-in (PSI) values from bulk RNA sequencing data.
QBRC/QBRC_BulkRnaSeqDE
Analysis pipeline for bulk RNA-seq data
Zhuang-Bio/miRNA_mRNA_profiling_paper_scripts
bulk RNA-seq of miRNA and mRNA profiling of human acute and chronic wounds
crhisto/DecoFlex
DecoFlex deconvolution method for Omic data implemented as DecoFlexR
Functional-Genomics/CATD
CATD: Critical Assessment of Transcriptomics Deconvolution
namini94/EXPORT
EXPORT: Explainable VAE for ordinally perturbed transcriptomics data
DerekBreton1/Bulk-RNAseq-Analysis
End-to-end pipeline for analyzing bulk RNA-sequencing data
ecianini/bulk_RNA-Seq
Project for the Transcriptomic course of "Bioinformatics for Computational Genomics" MSc
MeenaEaswaran/BMI-5311-Foundations-of-Biomedical-Information-Sciences-II
This repository includes scripts, data, and documentation for analyzing Bulk RNA-seq data from NCBI GEO, supporting journal paper preparation in alignment with course requirements.
MeenaEaswaran/BMI-5332-Statistical-Analysis-of-Genomic-Data
This repository includes scripts, data, and documentation for analyzing Bulk RNA-seq data from NCBI GEO, supporting a class project in alignment with course requirements.
metavannier/metatranscriptomics-bulkrnaseq_workflow
This workflow performs a metatranscriptomics and bulk RNAseq analysis from the sequencing output data to the differential expression analyses.
poloarol/scrna-analysis-tutorials
scRNA Analysis tutorials
ShwetaNagre/RNA_Seq_Workflow
Normalizing RNA-Seq Data
U-BDS/bulk_RNA_seq_workshop
Workshop materials for the U-BDS bulk RNA-seq lessons
utdal/Bulk-RNA-Seq-Nextflow-Pipeline
This is an automated workflow pipeline for analyzing and processing Bulk-RNA seq data, implemented primarily in bash, python and R, and wrapped in a NextFlow workflow to characterize the gene landscape in the samples.
WolfrumLab/MHUO
Unveiling adipose populations linked to metabolic health in obesity
Amirreza-Mousavi/Rodriguez2017_RNA_Seq_Analysis_Replication
In this repository, I try to replicate the results of Rodriguez2017