davidnboone / tcga_brca_rnaseq
jupyter notebook; perform differential gene expression analysis using DESeq2 on TCGA RNAseq data
☆32Updated 6 years ago
Alternatives and similar repositories for tcga_brca_rnaseq:
Users that are interested in tcga_brca_rnaseq are comparing it to the libraries listed below
- Relative Expression Ordering Analysis (REOA) package☆20Updated 2 years ago
- TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages☆44Updated last year
- This is a companion repository for the article "Comparative analysis of machine learning classifiers and calibration algorithms for estim…☆22Updated 3 years ago
- A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner☆51Updated last week
- 🏺 Exploring novel tumor epitope identification☆35Updated 4 years ago
- A pipeline for identifying indel derived neoantigens using RNA-Seq data☆30Updated 2 years ago
- ☆61Updated 4 years ago
- My youtube programming scripts☆52Updated 3 months ago
- Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously☆35Updated 2 years ago
- GREP: Genome for REPositioning drugs☆40Updated 2 years ago
- Single-cell exploratory data analysis for RNA-Seq☆40Updated 3 years ago
- Zhang, et al, Nature Immunology, 2019. Use single-cell transcriptomics and proteomics to study autoimmune diseases.☆20Updated last month
- ☆24Updated 9 years ago
- ☆47Updated 2 years ago
- Hierarchical HotNet is an algorithm for finding hierarchies of active subnetworks.☆36Updated 5 years ago
- Python 2.7 implementation of network-based stratification (NBS) algorithm from Hofree et al (Nature Methods 2013)☆37Updated 6 months ago
- Collaboration with Montine, Chang, and Montgomery labs on Alzheimers / Parkinson's ATAC-seq analysis☆46Updated 4 years ago
- Code related to the Celligner manuscript☆46Updated 4 years ago
- ☆11Updated 6 years ago
- Personal notes about work- and coding-related topics☆20Updated 2 years ago
- TIDE (Tumor Immune Dysfunction and Exclusion), a gene expression biomarker to predict the clinical response to immune checkpoint blockade…☆34Updated 2 years ago
- Unsupervised correction of gene independent cell responses to CRISPR-cas9☆49Updated last year
- ☆72Updated 3 years ago
- This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL☆55Updated 2 years ago
- repository with the scripts to run examples of the publications with new functionalities of TCGAbiolinks☆15Updated 3 years ago
- Code and additional processed data for manuscript "Tumor and Microenvironment Evolution during Immunotherapy with Nivolumab"; see for man…☆51Updated 7 years ago
- GREIN : GEO RNA-seq Experiments Interactive Navigator☆49Updated 5 years ago
- Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline☆45Updated last year
- Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"☆54Updated 4 years ago
- Tutorials and code for ISMB 2019 short course on Recent Advances in Statistical Methods and Computational Algorithms for Single-Cell Omic…☆40Updated 5 years ago