Alternatives and similar repositories for encode-data-usage-examples

Users that are interested in encode-data-usage-examples are comparing it to the libraries listed below

• sib-swiss / intro-machine-learning-training
  ☆57Updated last week
• Ashish438 / Python-for-Bioinformatics
  Python for Bioinformatics consist of a variety of python programmes,frequently used by bioinformaticians while handling biological data e…
  ☆43Updated last year
• broadinstitute / depmap_omics
  What you need to process the Quarterly DepMap-Omics releases from Terra
  ☆124Updated last month
• openvax / mhctools
  Python interface to running command-line and web-based MHC binding predictors
  ☆99Updated last year
• immunoengineer / gliph
  Grouping of Lymphocyte Interactions by Paratope Hotspots
  ☆97Updated 4 years ago
• andrewrech / antigen.garnish
  ☆49Updated 3 years ago
• griffithlab / pVACtools
  ☆162Updated this week
• sib-swiss / first-steps-with-python-training
  repository of the 3-day course "First steps with Python in Life Sciences" from SIB-training
  ☆65Updated last month
• immunitastx / coding_exercise_TCGA_infiltration
  coding exercise using TCGA immune infiltration data
  ☆46Updated last year
• bharani-lab / WES-Benchmarking-Pipeline_Manoj
  Benchmarking of aligners and variant callers for Whole Exome Sequencing data
  ☆20Updated 6 years ago
• sib-swiss / intermediate-python-training
  ☆79Updated this week
• uc-bd2k / GREIN
  GREIN : GEO RNA-seq Experiments Interactive Navigator
  ☆50Updated 6 years ago
• phbradley / tcr-dist
  Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
  ☆86Updated 4 years ago
• uio-bmi / immuneML
  immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.
  ☆71Updated last week
• crazyhottommy / machine-learning-resource
  ☆83Updated 11 months ago
• bjornwallner / ML_medbioinfo
  Machine Learning in Medical Bioinformatics
  ☆25Updated 6 months ago
• mikessh / vdjtools
  [Deprecated, see https://github.com/antigenomics/mirpy and other tools @antigenomics] Post-analysis of immune repertoire sequencing data
  ☆141Updated last year
• Illumina / PrimateAI
  deep residual neural network for classifying the pathogenicity of missense mutations.
  ☆115Updated 4 years ago
• antigenomics / vdjdb-db
  🗂️ [vdjdb.cdr3.net is up and running] Git-based TCR database storage & management. Submissions welcome!
  ☆145Updated 2 weeks ago
• akahles / icgc_rnaseq_align
  ☆18Updated 10 years ago
• urmi-21 / pyrpipe
  Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
  ☆84Updated 4 years ago
• singha53-zz / diablo
  DIABLO - an integrative multi-group, multi-dataset classification method
  ☆26Updated 6 years ago
• evanpeikon / functional_enrichment_analysis
  A DIY guide to gene ontology, pathway, and gene set enrichment analysis
  ☆26Updated last year
• gladstone-institutes / Interactive-Enrichment-Analysis
  A set of Shiny apps to provide interactive enrichment analysis and exploration of results.
  ☆31Updated 3 weeks ago
• hart-lab / drugz
  DRUGZ software
  ☆24Updated 4 years ago
• biocore / tcga
  Microbial analysis in TCGA data
  ☆92Updated last year
• BIMSBbioinfo / compgen_course_2025_module3
  Compgen Course 2025, Module 3 Course Material, Multi-omics integration using deep learning
  ☆64Updated 3 months ago
• hbc / NGS_Data_Analysis_Course
  ☆23Updated 9 years ago
• evanpeikon / bash_fundamentals
  Introduction to Bash for bioinformatics
  ☆49Updated last year
• openvax / neoantigen-vaccine-pipeline
  Bioinformatics pipeline for selecting patient-specific cancer neoantigen vaccines
  ☆86Updated last month