Alternatives and similar repositories for sctools

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

• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆43Updated 3 months ago
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated last week
• meuleman / epilogos
  Methods for summarizing and visualizing multi-biosample functional genomic annotations
  ☆46Updated 10 months ago
• nvictus / pybbi
  Python bindings to UCSC BigWig and BigBed library
  ☆35Updated last week
• agalitsyna / RedClib
  Red-C data processing
  ☆15Updated 2 years ago
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆61Updated 3 years ago
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated last year
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 4 years ago
• ebi-gene-expression-group / scanpy-scripts
  Scripts for using scanpy
  ☆39Updated 3 months ago
• pachterlab / seqspec
  machine-readable file format for genomic library sequence and structure
  ☆126Updated 5 months ago
• HumanCellAtlas / data-consumer-vignettes
  Simple walk-throughs of interacting with the DCP as a downstream data consumer.
  ☆17Updated this week
• 10XGenomics / spaceranger
  ☆20Updated 6 months ago
• ysora / stripenn
  Architectural stripe detection from 3D genome conformation data
  ☆18Updated 4 months ago
• cbg-ethz / SCICoNE
  Single-cell copy number calling and event history reconstruction.
  ☆28Updated last year
• dozmorovlab / excluderanges
  Genomic coordinates of problematic genomic regions as GRanges
  ☆51Updated last month
• higlass / higlass-docker
  Builds a docker container wrapping higlass-server and higlass-client in nginx
  ☆31Updated 3 years ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆41Updated 2 years ago
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆64Updated 2 months ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆34Updated last month
• aertslab / single_cell_toolkit
  Tools for correcting single cell barcodes for various scATAC-seq techniques and creating fragment files and spltting BAM files per cluste…
  ☆29Updated last month
• lhqing / ALLCools
  Toolkit for single-cell DNA methylation analysis.
  ☆46Updated 2 weeks ago
• mcvickerlab / varCA
  Use an ensemble of variant callers to call variants from ATAC-seq data
  ☆23Updated 8 months ago
• natsuhiko / rasqual
  Robust Allele Specific Quantification and quality controL
  ☆40Updated 4 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆28Updated 2 years ago
• songlab-cal / scquint
  ☆18Updated last year
• lcmmichielsen / scHPL
  ☆37Updated 2 weeks ago
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆74Updated last year
• open2c / open2c_examples
  ☆18Updated last year
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆41Updated 4 years ago
• afrendeiro / toolkit
  A toolkit for NGS analysis with Python
  ☆14Updated 3 years ago