Alternatives and similar repositories for safepy

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

• MaayanLab / blitzgsea
  Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …
  ☆52Updated 4 months ago
• biothings / mygene.py
  mygene is an easy-to-use Python wrapper to access MyGene.Info services.
  ☆94Updated 9 months ago
• churchmanlab / genewalk
  GeneWalk identifies relevant gene functions for a biological context using network representation learning
  ☆131Updated last year
• fraenkel-lab / OmicsIntegrator2
  Prize-Collecting Steiner Forests for Interactomes
  ☆62Updated last year
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆56Updated 5 years ago
• BergmannLab / MONET
  MONET : MOdularising NEtwork Toolbox - https://doi.org/10.1093/bioinformatics/btaa236
  ☆46Updated 4 years ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆95Updated 6 years ago
• sebriois / biomart
  Python biomart API
  ☆68Updated 2 years ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆109Updated 2 years ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆89Updated 11 months ago
• Teichlab / bbknn
  Batch balanced KNN
  ☆172Updated 2 years ago
• urmi-21 / pyrpipe
  Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
  ☆84Updated 4 years ago
• aertslab / arboreto
  A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.
  ☆60Updated last year
• MaayanLab / archs4
  ARCHS4 RNA-seq processing scripts and web server pages.
  ☆59Updated 4 years ago
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆50Updated last week
• saeyslab / moduledetection-evaluation
  ☆33Updated 4 years ago
• mhorlbeck / ScreenProcessing
  ☆67Updated 2 years ago
• theislab / sfaira
  data and model repository for single-cell data
  ☆135Updated last year
• bioFAM / mofapy2
  Multi-omics factor analysis v2
  ☆51Updated 11 months ago
• cstoeckert / iterativeWGCNA
  Extension of the WGCNA program to improve the eigengene similarity of modules and increase the overall number of genes in modules.
  ☆65Updated 4 years ago
• bedapub / besca
  BESCA (Beyond Single Cell Analysis) offers python functions for single-cell analysis
  ☆50Updated 4 months ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• scverse / scanpy_usage
  Scanpy use cases.
  ☆87Updated 5 years ago
• vanheeringen-lab / gimmemotifs
  Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…
  ☆120Updated last week
• broadinstitute / depmap_omics
  What you need to process the Quarterly DepMap-Omics releases from Terra
  ☆123Updated 3 weeks ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆84Updated 3 weeks ago
• saezlab / corneto
  Unified knowledge-driven network inference from omics data
  ☆85Updated 2 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆151Updated last year
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆132Updated 8 months ago
• r-bioinformatics / edgePy
  A Python implementation of edgeR for differential expression analysis
  ☆103Updated 6 years ago