Alternatives and similar repositories for avocado:

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

• BIMSBbioinfo / maui
  Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit
  ☆49Updated last year
• kundajelab / tfmodisco
  TF MOtif Discovery from Importance SCOres
  ☆132Updated last year
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆87Updated 5 years ago
• campbio / celda
  Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data
  ☆147Updated 5 months ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆78Updated 3 months ago
• Teichlab / bbknn
  Batch balanced KNN
  ☆152Updated last year
• linnarsson-lab / loompy
  Python implementation of the Loom file format - http://loompy.org
  ☆142Updated last month
• wckdouglas / diffexpr
  Porting DESeq2 into python via rpy2
  ☆68Updated last year
• AltschulerWu-Lab / scScope
  ☆49Updated 5 years ago
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆72Updated last year
• SchulzLab / TEPIC
  Annotation of genomic regions using transcription factor binding sites and epigenetic data
  ☆40Updated 2 years ago
• asrhou / scMatch
  scMatch: a single-cell gene expression profile annotation tool using reference datasets
  ☆24Updated 3 years ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆97Updated last year
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆82Updated last week
• gagneurlab / MMSplice_MTSplice
  Tissue-specific variant effect predictions on splicing
  ☆40Updated last year
• KrishnaswamyLab / MELD
  Quantifying experimental perturbations at single cell resolution
  ☆106Updated 4 months ago
• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆31Updated 4 years ago
• bioFAM / slalom
  ☆28Updated last year
• 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
• czi-hca-comp-tools / easy-data
  easy access to benchmark datasets
  ☆50Updated 6 years ago
• shwhalen / targetfinder
  ☆83Updated 3 years ago
• shwhalen / ml-pitfalls
  Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"
  ☆44Updated last year
• 10XGenomics / single-cell-3prime-paper
  ☆84Updated 4 years ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆135Updated 9 months ago
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆109Updated 2 months ago
• biothings / mygene.py
  mygene is an easy-to-use Python wrapper to access MyGene.Info services.
  ☆86Updated 2 weeks ago
• Teichlab / embl-single-cell-course-2016
  Material for lecture at the EMBL Single Cell Course 2016
  ☆47Updated 8 years ago
• dynverse / dynverse
  A set of tools supporting the development, execution, and benchmarking of trajectory inference methods. 🌍
  ☆74Updated 3 years ago
• theislab / sfaira
  data and model repository for single-cell data
  ☆135Updated last year
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆65Updated 6 months ago