Alternatives and similar repositories for cyclone

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

• kdkorthauer / scDD
  R package to identify genes with differential distributions in single-cell RNA-seq
  ☆33Updated 3 years ago
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆23Updated 6 years ago
• pachterlab / NYMP_2018
  ☆28Updated 6 years ago
• Neurosurgery-Brain-Tumor-Center-DiazLab / scell
  Single-CELL rna-seq analysis software
  ☆39Updated 7 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated last year
• hart-lab / bagel
  BAGEL software
  ☆27Updated last year
• rhondabacher / SCnorm
  Normalization for single cell RNA-seq data
  ☆47Updated 2 weeks ago
• montilab / hypeR
  An R Package for Geneset Enrichment Workflows
  ☆76Updated 3 weeks ago
• JEFworks / liger
  Lightweight Iterative Gene set Enrichment in R
  ☆57Updated 8 months ago
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Updated 8 years ago
• neuhausi / single-cell-viewer
  R package to visualize scRNA sequencing data.
  ☆20Updated 3 years ago
• HumanCellAtlas / skylab
  Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines
  ☆48Updated 3 months ago
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆17Updated 6 years ago
• YosefLab / scone
  ☆55Updated 4 months ago
• qqwang-berkeley / JUM
  A tool for annotation-free differential analysis of tissue-specific pre-mRNA alternative splicing patterns
  ☆28Updated 2 years ago
• lanagarmire / SSrGE
  ☆34Updated 6 years ago
• hms-dbmi / scw
  HSCI/Catalyst Single-cell RNA-Seq Workshop
  ☆19Updated 6 years ago
• mahmoudibrahim / JAMM
  JAMM Peak Finder for Sequencing Datasets
  ☆29Updated 5 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆28Updated 2 years ago
• AstraZeneca-NGS / disambiguate
  Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem
  ☆31Updated 7 years ago
• lagelab / Genoppi
  Genoppi: an open-source software for robust and standardized integration of proteomic and genetic data
  ☆26Updated last year
• mxxdxxx / FirebrowseR
  An R client for broads firehose pipeline, providing TCGA data sets
  ☆61Updated 6 years ago
• govinda-kamath / clustering_on_transcript_compatibility_counts
  Clustering cells from single cell RNA seq assays
  ☆46Updated 6 years ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 3 years ago
• RabadanLab / Pegasus
  Annotation and Prediction of Oncogenic Gene Fusions in RNAseq
  ☆11Updated 9 years ago
• waldronlab / HGNChelper
  Identify and correct invalid gene symbols
  ☆58Updated 7 months ago
• broadinstitute / BipolarCell2016
  ☆22Updated 5 years ago