Alternatives and similar repositories for precellar

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

• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆41Updated 2 months ago
• ebi-gene-expression-group / scanpy-scripts
  Scripts for using scanpy
  ☆38Updated 3 months ago
• cantinilab / HuMMuS
  Molecular interactions inference from single-cell multi-omics data
  ☆30Updated this week
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆32Updated 2 years ago
• ajaynadig / TRADEtools
  ☆35Updated 10 months ago
• DeplanckeLab / ChromatinHD
  High-definition modeling of chromatin + transcriptomics data
  ☆26Updated 9 months ago
• 10XGenomics / spaceranger
  ☆20Updated 6 months ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆33Updated last month
• pepkit / geofetch
  Builds a PEP from SRA or GEO accessions
  ☆54Updated last month
• HYsxe / PRINT
  ☆37Updated last year
• minoda-lab / universc
  UniverSC: a flexible cross-platform single-cell data processing pipeline
  ☆46Updated last year
• cellatlas / human
  ☆44Updated last year
• dozmorovlab / excluderanges
  Genomic coordinates of problematic genomic regions as GRanges
  ☆50Updated last month
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆30Updated this week
• cboix / EPIMAP_ANALYSIS
  Epimap processing and analysis code repository
  ☆33Updated 3 years ago
• rajewsky-lab / spacemake
  ☆48Updated this week
• EngreitzLab / scE2G
  Pipeline to run scE2G
  ☆32Updated 2 months ago
• SingleRust / SingleRust
  Single Rust: Pioneering single-cell analysis with Rust's concurrency for scalable, high-throughput pipelines. 🧬🚀
  ☆83Updated last month
• josephreplogle / guide_calling
  Tools for sgRNA calling in direct capture Perturb-seq data
  ☆39Updated 2 years ago
• aertslab / scATAC-seq_benchmark
  ☆19Updated 2 years ago
• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆34Updated 7 months ago
• lhqing / ALLCools
  Toolkit for single-cell DNA methylation analysis.
  ☆46Updated last month
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆32Updated 11 months ago
• YosefLab / Cassiopeia
  A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction
  ☆97Updated last month
• zhoujt1994 / scHiCluster
  ☆69Updated last month
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆57Updated last year
• WangPeng-Lab / scGCO
  Single-cell Graph Cuts Optimization
  ☆16Updated last year
• fmicompbio / adv_singlecell_2022
  Material for the "Advanced topics in single-cell analysis" course (2022 edition)
  ☆17Updated 3 years ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆67Updated 6 months ago
• COMBINE-lab / simpleaf
  A rust framework to make using alevin-fry even simpler
  ☆61Updated 8 months ago