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
  ☆50Updated 2 years ago
• genepattern / genepattern-notebook
  Platform for integrating genomic analysis with Jupyter Notebooks.
  ☆44Updated 2 weeks ago
• nellore / rail
  Scalable RNA-seq analysis
  ☆73Updated 4 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
• openvax / varcode
  Library for manipulating genomic variants and predicting their effects
  ☆84Updated last year
• biobuilds / biobuilds
  Curated collection of open-source bioinformatics tools
  ☆28Updated 6 years ago
• lucapinello / Haystack
  Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
  ☆31Updated 7 years ago
• jmschrei / rambutan
  Prediction of the 3D structure of the genome through statistically significant Hi-C contacts.
  ☆21Updated 7 years ago
• JEFworks / ubit2
  User-friendly Bioinformatics Tools
  ☆18Updated 4 years ago
• hbc / NGS-Data-Analysis-long-course
  ☆11Updated 8 years ago
• kundajelab / dfim
  Deep Feature Interaction Maps (DFIM)
  ☆53Updated 6 years ago
• OmnesRes / onco_lnc
  ☆35Updated 9 years ago
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated this week
• YosefLab / FastProject
  Dimensionality reduction for single cell RNA-seq data
  ☆36Updated 5 years ago
• brentp / python-giggle
  python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.
  ☆16Updated 7 years ago
• JEFworks-Lab / MERmaid
  WebGL-based viewer for spatially-resolved transcriptomics data
  ☆28Updated 2 years ago
• aboyle / F-seq
  A Feature Density Estimator for High-Throughput Sequence Tags
  ☆23Updated 4 years ago
• gmcvicker / genome
  Python library and scripts for retrieval and storage of genomics data in HDF5 format
  ☆26Updated 6 years ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 5 years ago
• broadinstitute / genepy
  Genepy is an open source utils package covering a range of useful functions for large scale genomics data analysis in python
  ☆21Updated 2 years ago
• sbg / sevenbridges-python
  SevenBridges Python Api bindings
  ☆46Updated 5 months ago
• jpiper / pyDNase
  Python module for the easy handling and analysis of DNase-seq data
  ☆37Updated 6 years ago
• ding-lab / hotspot3d
  3D hotspot mutation proximity analysis tool
  ☆47Updated 2 years ago
• erscott / pandasVCF
  VCF parser using the Python pandas library
  ☆27Updated 3 years ago
• omerwe / LEAP
  Liability Estimation for Case-Control Studies
  ☆10Updated 4 years ago
• kundajelab / coda
  Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data
  ☆33Updated 8 years ago
• pinellolab / haystack_bio
  Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
  ☆47Updated 3 years ago
• phenopolis / phenopolis
  An Open Platform for Harmonisation & Analysis of Sequencing & Phenotype Data
  ☆33Updated 3 years ago
• ibn-salem / sevenC
  7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
  ☆13Updated 6 years ago
• cognoma / cancer-data
  TCGA data acquisition and processing for Project Cognoma
  ☆20Updated 7 years ago