Alternatives and similar repositories for GSEApy

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

• owkin / PyDESeq2
  A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
  ☆695Updated last week
• mousepixels / sanbomics_scripts
  scripts and notebooks from sanbomics
  ☆449Updated 11 months ago
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆557Updated 4 months ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆397Updated 10 months ago
• mortazavilab / PyWGCNA
  PyWGCNA is a Python package designed to do Weighted Gene Correlation Network analysis (WGCNA)
  ☆278Updated 9 months ago
• tanghaibao / goatools
  Python library to handle Gene Ontology (GO) terms
  ☆870Updated 2 months ago
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆471Updated last week
• reneshbedre / bioinfokit
  Bioinformatics data analysis and visualization toolkit
  ☆361Updated last year
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆437Updated 9 months ago
• agitter / single-cell-pseudotime
  An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
  ☆427Updated last week
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆847Updated last year
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆485Updated 6 months ago
• Starlitnightly / omicverse
  A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
  ☆774Updated this week
• mdozmorov / scRNA-seq_notes
  A list of scRNA-seq analysis tools
  ☆752Updated last month
• mikelove / awesome-multi-omics
  List of software packages for multi-omics analysis
  ☆871Updated 3 weeks ago
• mdozmorov / HiC_tools
  A collection of tools for Hi-C data analysis
  ☆620Updated 2 weeks ago
• hbctraining / scRNA-seq
  ☆588Updated 4 years ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆425Updated this week
• pyranges / pyranges
  Performant Pythonic GenomicRanges
  ☆489Updated 3 weeks ago
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆389Updated last month
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆511Updated 2 weeks ago
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆393Updated 2 months ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆589Updated last week
• pachterlab / ffq
  A tool to find sequencing data and metadata from public databases.
  ☆592Updated last year
• ENCODE-DCC / atac-seq-pipeline
  ENCODE ATAC-seq pipeline
  ☆434Updated last year
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆158Updated 3 years ago
• dylkot / cNMF
  Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
  ☆388Updated 2 months ago
• hbctraining / DGE_workshop
  ☆401Updated 3 years ago
• hbctraining / Intro-to-scRNAseq
  ☆635Updated 7 months ago
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆330Updated last week