Alternatives and similar repositories for GSEApy:

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

• mortazavilab / PyWGCNA
  PyWGCNA is a Python package designed to do Weighted Gene Correlation Network analysis (WGCNA)
  ☆242Updated last month
• mousepixels / sanbomics_scripts
  scripts and notebooks from sanbomics
  ☆394Updated 3 months ago
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆797Updated 8 months ago
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆300Updated 2 years ago
• mikelove / awesome-multi-omics
  List of software packages for multi-omics analysis
  ☆765Updated 11 months ago
• hbctraining / DGE_workshop
  ☆386Updated 3 years ago
• ENCODE-DCC / atac-seq-pipeline
  ENCODE ATAC-seq pipeline
  ☆407Updated 8 months ago
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆453Updated 3 months ago
• owkin / PyDESeq2
  A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
  ☆633Updated this week
• pyranges / pyranges
  Performant Pythonic GenomicRanges
  ☆461Updated last week
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆390Updated last month
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆484Updated 11 months ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆341Updated 2 months ago
• pachterlab / ffq
  A tool to find sequencing data and metadata from public databases.
  ☆568Updated 7 months ago
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆481Updated 2 months ago
• hbctraining / In-depth-NGS-Data-Analysis-Course
  ☆441Updated 4 years ago
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆338Updated 2 months ago
• hbctraining / scRNA-seq
  ☆554Updated 4 years ago
• saketkc / pysradb
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆325Updated last month
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆316Updated this week
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆433Updated 3 weeks ago
• agitter / single-cell-pseudotime
  An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
  ☆418Updated this week
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆358Updated last month
• mdozmorov / HiC_tools
  A collection of tools for Hi-C data analysis
  ☆571Updated last month
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆394Updated this week
• openvax / pyensembl
  Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl
  ☆391Updated 9 months ago
• crazyhottommy / awesome_spatial_omics
  tools and notes for spatial omics
  ☆273Updated 3 weeks ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆346Updated 3 months ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆314Updated last year
• mdozmorov / scRNA-seq_notes
  A list of scRNA-seq analysis tools
  ☆680Updated 2 weeks ago