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 11 months ago
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆59Updated last month
• mdshw5 / simplesam
  Simple pure Python SAM parser and objects for working with SAM records
  ☆64Updated 2 years ago
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆60Updated 2 years ago
• panoptes-organization / panoptes
  Monitor computational workflows in real time
  ☆73Updated last year
• nellore / rail
  Scalable RNA-seq analysis
  ☆73Updated 4 years ago
• chanzuckerberg / ExpressionMatrix2
  Software for exploration of gene expression data from single-cell RNA sequencing.
  ☆28Updated 5 years ago
• sebriois / biomart
  Python biomart API
  ☆65Updated last year
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆30Updated 2 years ago
• stracquadaniolab / pygna
  A Python package for gene network analysis
  ☆32Updated 2 years ago
• benchling / integration-examples
  Example usage of the Benchling API: https://docs.benchling.com/
  ☆32Updated last year
• BD2KGenomics / toil-rnaseq
  UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline
  ☆41Updated 4 years ago
• mpg-age-bioinformatics / AGEpy
  Bioinformatics tools for Python
  ☆25Updated 5 months ago
• openvax / pepdata
  Python interface to amino acid properties and IEDB
  ☆56Updated 7 months ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 5 years ago
• schlegelp / catheat
  Plot categorical heatmaps with seaborn
  ☆18Updated 2 years ago
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆55Updated 5 years ago
• stjudecloud / workflows
  Bioinformatics workflows developed for and used on the St. Jude Cloud project.
  ☆36Updated this week
• statbiophys / SONIA
  Infer selection pressures on features of amino acid CDR3 sequences.
  ☆25Updated 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
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated last week
• lcdb / lcdb-wf
  Robust, tested workflows for RNA-seq, ChIP-seq and other high-throughput sequencing analysis
  ☆23Updated 2 months ago
• DataBiosphere / terra-docker
  ☆29Updated 3 weeks ago
• genepattern / genepattern-server
  The GenePattern Server web application
  ☆36Updated 3 weeks ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• MaayanLab / biojupies-plugins
  User-submitted RNA-seq data analysis tools for BioJupies.
  ☆20Updated 4 years ago
• ucsd-ccbb / VAPr
  VAPr: A Python package for NoSQL variant data storage, annotation and prioritization
  ☆36Updated 3 years ago
• bigdatagenomics / cannoli
  Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.
  ☆41Updated 3 months ago
• gmcvicker / genome
  Python library and scripts for retrieval and storage of genomics data in HDF5 format
  ☆26Updated 6 years ago
• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆32Updated 4 years ago