Alternatives and similar repositories for ANANSE

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

• single-cell-genetics / vireo
  Demultiplexing pooled scRNA-seq data with or without genotype reference
  ☆96Updated 9 months ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆156Updated 3 months ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆119Updated 3 years ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆80Updated 2 years ago
• urmi-21 / pyrpipe
  Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
  ☆84Updated 4 years ago
• YosefLab / Cassiopeia
  A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction
  ☆97Updated last month
• bernardo-de-almeida / DeepSTARR
  Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…
  ☆72Updated 2 years ago
• aertslab / arboreto
  A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.
  ☆64Updated last year
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆98Updated 6 years ago
• jzhoulab / orca
  sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale
  ☆94Updated 10 months ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆110Updated last year
• CostaLab / reg-gen
  Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
  ☆111Updated 2 months ago
• czbiohub-sf / tabula-muris-senis
  Tabula Muris Senis
  ☆108Updated 2 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…
  ☆123Updated 3 months ago
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• calico / solo
  software to detect doublets
  ☆96Updated last year
• aertslab / SCope
  Fast visualization tool for large-scale and high dimensional single-cell data
  ☆77Updated last month
• mdozmorov / ChIP-seq_notes
  Notes on ChIP-seq and other-seq-related tools
  ☆26Updated 2 weeks ago
• regulatory-genomics / precellar
  Universal Single-Cell Genomics Preprocessing package
  ☆48Updated last week
• theislab / sfaira
  data and model repository for single-cell data
  ☆136Updated 2 years ago
• 10XGenomics / bamtofastq
  Convert 10x BAM files to the original FASTQs compatible with 10x pipelines
  ☆66Updated 2 weeks ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆154Updated last year
• deweylab / CellO
  CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
  ☆68Updated 2 years ago
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆87Updated 9 months ago
• vierstralab / motif-clustering
  Clustering motif models to remove redundancy
  ☆43Updated 2 years ago
• powellgenomicslab / scPred
  scPred package for cell type prediction from scRNA-seq data
  ☆96Updated 2 years ago
• pachterlab / kb_python
  A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
  ☆182Updated last week
• vanallenlab / comut
  CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
  ☆96Updated last year
• tuonglab / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package
  ☆123Updated this week
• gaolabtools / scNanoGPS
  Single cell Nanopore sequencing data for Genotype and Phenotype
  ☆57Updated 8 months ago