Alternatives and similar repositories for edgePy:

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

• wckdouglas / diffexpr
  Porting DESeq2 into python via rpy2
  ☆68Updated last year
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆55Updated 5 years ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆117Updated 2 years ago
• sebriois / biomart
  Python biomart API
  ☆65Updated last year
• deweylab / CellO
  CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
  ☆65Updated last year
• urmi-21 / pyrpipe
  Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
  ☆82Updated 3 years ago
• sheynkman-lab / Long-Read-Proteogenomics
  A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.
  ☆44Updated 2 years ago
• pachterlab / seqspec
  machine-readable file format for genomic library sequence and structure
  ☆119Updated 2 weeks ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆87Updated 5 years ago
• scverse / scanpy_usage
  Scanpy use cases.
  ☆82Updated 4 years ago
• linnarsson-lab / loompy
  Python implementation of the Loom file format - http://loompy.org
  ☆142Updated 2 months ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆100Updated 4 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆142Updated last year
• vanheeringen-lab / gimmemotifs
  Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…
  ☆115Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆122Updated 9 months ago
• nsalomonis / altanalyze
  AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-…
  ☆100Updated 2 years ago
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆142Updated 3 months ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆146Updated 2 years ago
• vanallenlab / comut
  CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
  ☆91Updated 7 months ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆124Updated 6 months ago
• YeoLab / single-cell-bioinformatics
  Course material in notebook format for learning about single cell bioinformatics methods
  ☆102Updated 8 years ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆142Updated 8 months ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆205Updated last month
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆101Updated 2 years ago
• AllonKleinLab / SPRING
  ☆67Updated 6 years ago
• mdozmorov / Cancer_notes
  A continually expanding collection of cancer genomics notes and data
  ☆102Updated 4 months ago
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆278Updated 8 months ago
• genialis / RNAnorm
  Normalization of RNA-seq gene expression
  ☆84Updated last month
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated last year
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆170Updated 8 months ago