Alternatives and similar repositories for cbioportal:

Users that are interested in cbioportal are comparing it to the libraries listed below

• cBioPortal / cbioportal-frontend
  React Frontend of cBioPortal
  ☆112Updated this week
• cBioPortal / datahub
  A centralized location for storing curated data from cBioPortal
  ☆178Updated this week
• cBioPortal / GSoC
  Documentation repository of Google Summer of Code (GSoC) project ideas for cBioPortal and related projects
  ☆115Updated 3 months ago
• igvteam / igv.js
  Embeddable genomic visualization component based on the Integrative Genomics Viewer
  ☆656Updated this week
• igvteam / igv
  Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations
  ☆653Updated this week
• COMBINE-lab / salmon
  🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
  ☆783Updated 7 months ago
• bcbio / bcbio-nextgen
  Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
  ☆994Updated 4 months ago
• MultiQC / MultiQC
  Aggregate results from bioinformatics analyses across many samples into a single report.
  ☆1,253Updated this week
• macs3-project / MACS
  MACS -- Model-based Analysis of ChIP-Seq
  ☆719Updated last month
• BioinformaticsFMRP / TCGAbiolinks
  TCGAbiolinks
  ☆302Updated 5 months ago
• chanzuckerberg / cellxgene
  An interactive explorer for single-cell transcriptomics data
  ☆654Updated last month
• pysam-developers / pysam
  Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight…
  ☆797Updated 2 months ago
• seandavi / awesome-cancer-variant-databases
  A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.
  ☆300Updated last year
• STAR-Fusion / STAR-Fusion
  STAR-Fusion codebase
  ☆235Updated last month
• freebayes / freebayes
  Bayesian haplotype-based genetic polymorphism discovery and genotyping.
  ☆798Updated 7 months ago
• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆379Updated last month
• samtools / hts-specs
  Specifications of SAM/BAM and related high-throughput sequencing file formats
  ☆664Updated last week
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆353Updated last month
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆402Updated 2 weeks ago
• PoisonAlien / maftools
  Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.
  ☆454Updated 2 months ago
• cBioPortal / cbioportal-docker-compose
  Run cBioPortal using Docker Compose
  ☆14Updated this week
• lindenb / jvarkit
  Java utilities for Bioinformatics
  ☆490Updated this week
• Ensembl / ensembl-vep
  The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants
  ☆464Updated this week
• brentp / cyvcf2
  cython + htslib == fast VCF and BCF processing
  ☆386Updated 4 months ago
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆489Updated 2 months ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆258Updated 3 months ago
• dellytools / delly
  DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
  ☆454Updated this week
• milaboratory / mixcr
  MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
  ☆338Updated 3 weeks ago
• BenLangmead / bowtie2
  A fast and sensitive gapped read aligner
  ☆688Updated last month
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆329Updated last month