jupyter notebook; perform differential gene expression analysis using DESeq2 on TCGA RNAseq data
☆33Mar 1, 2019Updated 7 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
Sorting:
- TCGA data acquisition and processing for Project Cognoma☆22Apr 19, 2018Updated 7 years ago
- ☆36Sep 6, 2017Updated 8 years ago
- R package with Shiny application for DGE analysis☆12Jan 8, 2024Updated 2 years ago
- Source code and data files for "PEMT: A patent enrichment tool with applicability in drug discovery"☆16Jan 27, 2025Updated last year
- Visualisation and prioritisation of genomic variants from human exome sequencing projects☆13Apr 23, 2019Updated 6 years ago
- Beginning of a textbook for shell skills for bioinformatics☆11Oct 7, 2025Updated 5 months ago
- DEAPP shiny App☆30Jun 8, 2022Updated 3 years ago
- This BLENDER has been sunsetted☆16Sep 27, 2024Updated last year
- Welcome to Colab_NAMD_suit, your gateway to running MD simulations!☆17Jun 25, 2024Updated last year
- ☆21Oct 2, 2024Updated last year
- Python utilities for building integrated views of TCGA data.☆32Mar 25, 2018Updated 7 years ago
- Graph Neural Network model for survival analysis from multi-omics data☆14Mar 9, 2022Updated 4 years ago
- A GGNN-GWM based step-wise framework for Chemical Synthesis Prediction☆20Oct 1, 2019Updated 6 years ago
- A python package to explore pathways, diseases and drugs associated to a list of targets (genes, proteins, etc)☆20Updated this week
- Somatic workflow for Kids-First☆15Updated this week
- SARS-CoV-2 analysis pipeline for multiplex-PCR MPS(Massive Parrallel Sequencing) data☆20Jan 24, 2022Updated 4 years ago
- ☆29Sep 4, 2023Updated 2 years ago
- Multi-omics data normalisation, model fitting and visualisation.☆27Apr 6, 2023Updated 2 years ago
- Analysis examples based on the ISB-CGC hosted TCGA data, using Python and IPython Notebooks.☆54Jul 20, 2019Updated 6 years ago
- High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants☆22Mar 27, 2020Updated 5 years ago
- A workflow for construction of Gene Expression count Matrices (GEMs). Useful for Differential Gene Expression (DGE) analysis and Gene Co-…☆36Nov 25, 2024Updated last year
- A shiny-based web tool for interactive analysis of DepMap data☆24Feb 13, 2021Updated 5 years ago
- using shallow neural network layer (embedding) to infer gene-gene/sample relationship from gene expression data☆21Nov 16, 2018Updated 7 years ago
- ☆25Aug 1, 2022Updated 3 years ago
- JARVIS: a comprehensive deep learning framework to prioritise non-coding variants in whole genomes☆25Jan 8, 2025Updated last year
- ☆61Mar 23, 2021Updated 4 years ago
- DRAGEN Tumor/Normal workflow post-processing☆25Sep 18, 2023Updated 2 years ago
- R Interface to the NCBI SRA metadata☆23Nov 19, 2018Updated 7 years ago
- MACA: Marker-based automatic cell-type annotation for single cell expression data☆25Jul 12, 2023Updated 2 years ago
- ☆28Apr 5, 2025Updated 11 months ago
- ASAP : Automated Single-cell Analysis Pipeline☆27May 20, 2025Updated 9 months ago
- Updated figures for "A benchmarking of WGS-based structural variant callers" paper☆27Apr 3, 2022Updated 3 years ago
- Prognostically Relevant Subtypes and Survival Prediction for Breast Cancer Based on Multimodal Genomics Data☆29Aug 13, 2019Updated 6 years ago
- Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells…☆29Oct 16, 2021Updated 4 years ago
- ☆12Aug 20, 2024Updated last year
- Quality of life improvements for Bioinformatics in Python.☆31Feb 28, 2026Updated last week
- ☆28Oct 5, 2018Updated 7 years ago
- Intro to R and RStudio for Genomics☆30Mar 3, 2026Updated last week
- ☆36Feb 1, 2022Updated 4 years ago