Alternatives and similar repositories for TCGA

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

• ueser / FIDDLE
  Flexible Integration of Data with Deep LEarning
  ☆51Updated 2 years ago
• jmschrei / rambutan
  Prediction of the 3D structure of the genome through statistically significant Hi-C contacts.
  ☆21Updated 7 years ago
• lucapinello / Haystack
  Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
  ☆31Updated 8 years ago
• genepattern / genepattern-notebook
  Platform for integrating genomic analysis with Jupyter Notebooks.
  ☆44Updated 6 months ago
• openvax / varcode
  Library for manipulating genomic variants and predicting their effects
  ☆85Updated last year
• nellore / rail
  Scalable RNA-seq analysis
  ☆73Updated 5 years ago
• aboyle / F-seq
  A Feature Density Estimator for High-Throughput Sequence Tags
  ☆22Updated 4 years ago
• jpiper / pyDNase
  Python module for the easy handling and analysis of DNase-seq data
  ☆37Updated 6 years ago
• isb-cgc / examples-Python
  Analysis examples based on the ISB-CGC hosted TCGA data, using Python and IPython Notebooks.
  ☆54Updated 6 years ago
• JEFworks-Lab / MERmaid
  WebGL-based viewer for spatially-resolved transcriptomics data
  ☆28Updated 3 years ago
• kundajelab / dfim
  Deep Feature Interaction Maps (DFIM)
  ☆54Updated 6 years ago
• JEFworks / ubit2
  User-friendly Bioinformatics Tools
  ☆18Updated 4 years ago
• gagneurlab / concise
  Concise: Keras extension for regulatory genomics
  ☆35Updated 3 years ago
• ibn-salem / sevenC
  7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
  ☆13Updated 3 months ago
• YosefLab / FastProject
  Dimensionality reduction for single cell RNA-seq data
  ☆36Updated 6 years ago
• chanzuckerberg / ExpressionMatrix2
  Software for exploration of gene expression data from single-cell RNA sequencing.
  ☆28Updated 6 years ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 6 years ago
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated 2 months ago
• sbg / sevenbridges-python
  SevenBridges Python Api bindings
  ☆46Updated 11 months ago
• hbc / NGS-Data-Analysis-long-course
  ☆11Updated 8 years ago
• ding-lab / hotspot3d
  3D hotspot mutation proximity analysis tool
  ☆52Updated 2 years ago
• epaull / TieDIE
  Tied Diffusion for Subnetwork Discovery (TieDIE)
  ☆37Updated 4 years ago
• kundajelab / coda
  Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data
  ☆34Updated 8 years ago
• boutroslab / cld
  A software for the multispecies design of CRISPR/Cas9 libraries
  ☆36Updated 3 years ago
• ManuSetty / wishbone
  Wishbone is an algorithm to align cells along developmental trajectories with branches
  ☆42Updated 6 years ago
• biobuilds / biobuilds
  Curated collection of open-source bioinformatics tools
  ☆28Updated 7 years ago
• raphael-group / wext
  A Weighted Exact Test for Mutually Exclusive Mutations in Cancer
  ☆21Updated 7 years ago
• openvax / vaxrank
  Ranked vaccine peptides for personalized cancer immunotherapy
  ☆61Updated this week
• gmcvicker / genome
  Python library and scripts for retrieval and storage of genomics data in HDF5 format
  ☆27Updated 6 years ago
• SnakeChunks / SnakeChunks
  Modular blocks to build Snakemake workflows for reproducible NGS analyses
  ☆22Updated 6 years ago