cBioPortal / datahub

Related projects: ⓘ

• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆368Updated 2 months ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆180Updated 3 months ago
• mskcc / RNAseqDB
  ☆139Updated 6 years ago
• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆202Updated 3 months ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆198Updated last month
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆339Updated 5 months ago
• broadinstitute / ichorCNA
  Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
  ☆160Updated 6 months ago
• bioFAM / MOFA
  Multi-Omics Factor Analysis
  ☆231Updated 3 years ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆147Updated last year
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆132Updated 4 years ago
• 10XGenomics / vartrix
  Single-Cell Genotyping Tool
  ☆198Updated 11 months ago
• konradjk / loftee
  ☆174Updated last year
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆273Updated 2 months ago
• Cloufield / gwaslab
  A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/
  ☆150Updated 2 weeks ago
• oncokb / oncokb-annotator
  Annotates variants in MAF with OncoKB annotation.
  ☆121Updated 3 months ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆232Updated 6 months ago
• STAR-Fusion / STAR-Fusion
  STAR-Fusion codebase
  ☆229Updated last month
• AlexandrovLab / SigProfilerExtractor
  SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…
  ☆151Updated last month
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆192Updated 6 months ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆114Updated 4 months ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆257Updated 3 months ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆177Updated 5 months ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆120Updated 4 years ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆174Updated 2 weeks ago
• freeseek / gtc2vcf
  Tools to convert Illumina IDAT/BPM/EGT/GTC and Affymetrix CEL/CHP files to VCF
  ☆138Updated 4 months ago
• mdozmorov / TCGAsurvival
  Scripts to analyze TCGA data
  ☆114Updated 6 months ago
• Cloufield / GWASTutorial
  GWAS Tutorial for Beginners
  ☆142Updated 2 weeks ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆239Updated last year
• zhangyuqing / ComBat-seq
  Batch effect adjustment based on negative binomial regression for RNA sequencing count data
  ☆157Updated 3 years ago
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆321Updated last month