Alternatives and similar repositories for genepattern-notebook:

Users that are interested in genepattern-notebook are comparing it to the libraries listed below

• openvax / varcode
  Library for manipulating genomic variants and predicting their effects
  ☆84Updated 9 months ago
• panoptes-organization / panoptes
  Monitor computational workflows in real time
  ☆72Updated 10 months ago
• sebriois / biomart
  Python biomart API
  ☆65Updated last year
• openvax / pepdata
  Python interface to amino acid properties and IEDB
  ☆56Updated 6 months ago
• gmcvicker / genome
  Python library and scripts for retrieval and storage of genomics data in HDF5 format
  ☆26Updated 6 years ago
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated 7 months ago
• mpg-age-bioinformatics / AGEpy
  Bioinformatics tools for Python
  ☆25Updated 4 months ago
• FRED-2 / Fred2
  Python-based framework for computational immunomics
  ☆40Updated 3 years ago
• bigdatagenomics / cannoli
  Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.
  ☆40Updated last month
• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆32Updated 4 years ago
• MaayanLab / biojupies
  Automated generation of tailored bioinformatics Jupyter Notebooks via a user interface.
  ☆114Updated 5 months ago
• BD2KGenomics / toil-rnaseq
  UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline
  ☆40Updated 4 years ago
• benchling / integration-examples
  Example usage of the Benchling API: https://docs.benchling.com/
  ☆32Updated last year
• markziemann / dee2
  Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data
  ☆40Updated this week
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆59Updated this week
• nellore / rail
  Scalable RNA-seq analysis
  ☆73Updated 4 years ago
• joshuagryphon / plastid
  Position-wise analysis of sequencing and genomics data
  ☆39Updated last year
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆50Updated 5 years ago
• mdshw5 / simplesam
  Simple pure Python SAM parser and objects for working with SAM records
  ☆64Updated 2 years ago
• EliLillyCo / pytest-wdl
  WDL plugin for pytest
  ☆48Updated last year
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆60Updated 2 years ago
• jdrudolph / goenrich
  GO enrichment with python -- pandas meets networkx
  ☆88Updated 4 years ago
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆55Updated 5 years ago
• broadinstitute / single_cell_portal
  Tutorials, workflows, and convenience scripts for Single Cell Portal
  ☆50Updated last year
• lehtiolab / proteogenomics-analysis-workflow
  IPAW: a Nextflow workflow for proteogenomics
  ☆27Updated 8 months ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 5 years ago
• brentp / cruzdb
  python access to UCSC genomes database
  ☆135Updated 4 years ago
• VCCRI / Falco
  A quick and flexible single-cell RNA-seq processing framework on the cloud
  ☆38Updated 5 years ago
• greenelab / multi-plier
  An unsupervised transfer learning approach for rare disease transcriptomics
  ☆45Updated 5 years ago
• ncbi / pm4ngs
  Project Manager for NGS data analysis
  ☆30Updated 2 years ago